8-K

MERCURY SYSTEMS INC (MRCY)

8-K 2025-08-11 For: 2025-08-11
View Original
Added on April 09, 2026

UNITED STATES

SECURITIES AND EXCHANGE COMMISSION

WASHINGTON, DC 20549

FORM 8-K

CURRENT REPORT

PURSUANT TO SECTION 13 OR 15(d) OF THE

SECURITIES EXCHANGE ACT OF 1934

Date of report (Date of earliest event reported): August 11, 2025

Mercury Systems, Inc.

(Exact Name of Registrant as Specified in its Charter)

Massachusetts 001-41194 04-2741391
(State or Other Jurisdiction<br><br>of Incorporation) (Commission File Number) (IRS Employer<br><br>Identification No.)
50 Minuteman Road, Andover, Massachusetts 01810
--- --- --- ---
(Address of Principal Executive Offices) (Zip Code)

Registrant’s telephone number, including area code: (978) 256-1300

Not Applicable

(Former Name or Former Address, if Changed Since Last Report)

Check the appropriate box below if the Form 8-K filing is intended to simultaneously satisfy the filing obligation of the registrant under any of the following provisions (see General Instruction A.2. below):

Written communications pursuant to Rule 425 under the Securities Act (17 CFR 230.425)
Soliciting material pursuant to Rule 14a-12 under the Exchange Act (17 CFR 240.14a-12)
Pre-commencement communications pursuant to Rule 14d-2(b) under the Exchange Act (17 CFR 240.14d-2(b))
Pre-commencement communications pursuant to Rule 13e-4(c) under the Exchange Act (17 CFR 240.13e-4(c))

Indicate by check mark whether the registrant is an emerging growth company as defined in Rule 405 of the Securities Act of 1933 (§230.405 of this chapter) or Rule 12b-2 of the Securities Exchange Act of 1934 (§240.12b-2 of this chapter).

Emerging growth company  ☐

If an emerging growth company, indicate by check mark if the registrant has elected not to use the extended transition period for complying with any new or revised financial accounting standards provided pursuant to Section 13(a) of the Exchange Act.  ☐

Securities registered pursuant to Section 12(b) of the Act:

Title of each class Trading Symbol(s) Name of each exchange on which registered
Common Stock, par value $0.01 MRCY Nasdaq Global Select Market

Item 2.02.    Results of Operations and Financial Condition.

On August 11, 2025, Mercury Systems, Inc. (the "Company" or "we") issued a press release and an earnings presentation regarding its financial results for the fourth quarter and fiscal year ended June 27, 2025. The press release and earnings presentation are attached as exhibits 99.1 and 99.2 to this Current Report on Form 8-K and incorporated by reference herein.

Information in Item 2.02 of this Current Report on Form 8-K and the exhibits 99.1 and 99.2 attached hereto shall not be deemed “filed” for purposes of Section 18 of the Securities Exchange Act of 1934, as amended (the “Exchange Act”) or otherwise subject to the liabilities of that section, nor shall it be deemed incorporated by reference in any filing under the Securities Act of 1933, as amended, or the Exchange Act, regardless of any general incorporation language in such filing.

Use of Non-GAAP Financial Measures

In addition to reporting financial results in accordance with generally accepted accounting principles, or GAAP, the Company provides adjusted EBITDA, adjusted income, adjusted EPS, and free cash flow, which are non-GAAP financial measures. Adjusted EBITDA, adjusted income, and adjusted EPS exclude certain non-cash and other specified charges. The Company believes these non-GAAP financial measures are useful to help investors more completely understand its past financial performance and prospects for the future. However, the presentation of these non-GAAP financial measures is not meant to be considered in isolation or as a substitute for financial information provided in accordance with GAAP. Management believes these non-GAAP financial measures assist in providing a more complete understanding of the Company’s underlying operational results and trends, and management uses these measures along with the corresponding GAAP financial measures to manage the Company’s business, to evaluate its performance compared to prior periods and the marketplace, and to establish operational goals.

Item 9.01.    Financial Statements and Exhibits.

(d)    Exhibits.

Exhibit No. Description
99.1 Press Release dated August 11, 2025
99.2 Earnings Presentation dated August 11, 2025
104 Cover Page Interactive Data File (embedded within the Inline XBRL document)

SIGNATURES

Pursuant to the requirements of the Securities Exchange Act of 1934, the registrant has duly caused this report to be signed on its behalf by the undersigned thereunto duly authorized.

Dated: August 11, 2025 MERCURY SYSTEMS, INC.
By: /s/ David E. Farnsworth<br><br>David E. Farnsworth<br><br>Executive Vice President, Chief Financial Officer

EXHIBIT INDEX

Exhibit No. Description
99.1 Press Release, dated August 11, 2025 of Mercury Systems, Inc.
99.2 Earnings Presentation, dated August 11, 2025 of Mercury Systems, Inc.

Document

Exhibit 99.1

newlogoa.jpg

FOR IMMEDIATE RELEASE

Mercury Systems Reports Fourth Quarter and Fiscal 2025 Results

•Record Q4 FY25 Bookings of $341.5 million; book-to-bill of 1.25

•Record backlog of $1.40 billion; up 6% year-over-year

•Q4 FY25 Revenue of $273.1 million; GAAP net income of $16.4 million; and adjusted EBITDA of $51.3 million

•Q4 FY25 Operating Cash Flow of $38.1 million with Free Cash Flow of $34.0 million, with record free cash flow of $119.0 million for FY25

ANDOVER, Mass. August 11, 2025 Mercury Systems, Inc. (NASDAQ: MRCY, www.mrcy.com), reported operating results for the fourth quarter and fiscal year 2025, ended June 27, 2025.

“We delivered very strong results in the fourth quarter that were once again in line with or ahead of our expectations, resulting in solid year-over-year growth in backlog, revenue, net income, adjusted EBITDA, and free cash flow for our full fiscal year 2025,” said Bill Ballhaus, Mercury’s Chairman and CEO.

“In the fourth quarter we delivered record quarterly bookings of $341.5 million, and a book-to-bill of 1.25, resulting in a record backlog of $1.40 billion. Fourth quarter revenue of $273.1 million and full year revenue of $912.0 million were up 9.9% and 9.2% year-over-year, respectively. Fourth quarter adjusted EBITDA of $51.3 million with adjusted EBITDA margin of 18.8% and full year adjusted EBITDA of $119.4 million with full year adjusted EBITDA margin of 13.1%, were all up substantially year-over-year. Fourth quarter free cash flow of $34.0 million resulted in record full year free cash flow of $119.0 million."

Mercury Reports Fourth Quarter and Fiscal 2025 Results, Page 2

Fourth Quarter Fiscal 2025 Results

Fourth quarter fiscal 2025 revenues were $273.1 million, compared to $248.6 million in the fourth quarter of fiscal 2024.

Total bookings for the fourth quarter of fiscal 2025 were $341.5 million, yielding a book-to-bill ratio of 1.25 for the quarter.

GAAP net income and diluted earnings per share for the fourth quarter of fiscal 2025 were $16.4 million, and $0.27, respectively, compared to GAAP net loss and loss per share of $10.8 million, and $0.19, respectively, for the fourth quarter of fiscal 2024. Adjusted earnings per share (“adjusted EPS”) was $0.47 per share for the fourth quarter of fiscal 2025, compared to $0.23 per share in the fourth quarter of fiscal 2024.

Fourth quarter fiscal 2025 adjusted EBITDA was $51.3 million, compared to $31.2 million for the fourth quarter of fiscal 2024.

Cash flows provided by operating activities in the fourth quarter of fiscal 2025 were $38.1 million, compared to $71.8 million in the fourth quarter of fiscal 2024. Free cash flow, defined as cash flows from operating activities less capital expenditures for property and equipment, was $34.0 million for the fourth quarter of fiscal 2025 and $61.4 million for the fourth quarter of fiscal 2024.

Full Year Fiscal 2025 Results

Full year fiscal 2025 revenues were $912.0 million, compared to $835.3 million for full year fiscal 2024.

Total bookings for fiscal 2025 were $1.03 billion, yielding a book-to-bill ratio of 1.13 for the year.

GAAP net loss and loss per share for fiscal 2025 were $37.9 million, and $0.65, respectively, compared to GAAP net loss and loss per share of $137.6 million, and $2.38, respectively, for fiscal 2024. Adjusted earnings per share (“adjusted EPS”) was $0.64 per share for fiscal 2025, compared to adjusted loss per share of $0.69 per share for fiscal 2024.

Fiscal 2025 adjusted EBITDA was $119.4 million, compared to $9.4 million for fiscal 2024.

50 Minuteman Road, Andover, Massachusetts 01810 U.S.A. | +1-(978)-256-1300 | www.mrcy.com | X: @MRCY

Mercury Reports Fourth Quarter and Fiscal 2025 Results, Page 3

Cash flows provided by operating activities in fiscal 2025 were $138.9 million, compared to $60.4 million in fiscal 2024. Free cash flow, defined as cash flows from operating activities less capital expenditures for property and equipment, was $119.0 million for fiscal 2025 and $26.1 million for fiscal 2024.

Backlog

Mercury’s total backlog at June 27, 2025 was $1.40 billion, an approximate $79.2 million increase from a year ago. Of the June 27, 2025 total backlog, $807.8 million represents orders expected to be recognized as revenue within the next 12 months.

50 Minuteman Road, Andover, Massachusetts 01810 U.S.A. | +1-(978)-256-1300 | www.mrcy.com | X: @MRCY

Mercury Reports Fourth Quarter and Fiscal 2025 Results, Page 4

Conference Call Information

Management will host a conference call and simultaneous webcast at 5:00 p.m. ET on Monday, August 11, 2025, to discuss Mercury's quarterly financial results, business highlights and outlook. In addition, Company representatives may answer questions concerning business and financial developments and trends, the Company's view on earnings forecasts, and other business and financial matters affecting the Company, the responses to which may contain information that has not been previously disclosed.

To attend the conference call or webcast, participants should register online at ir.mrcy.com/events-presentations. Participants are requested to register a day in advance or at a minimum 15 minutes before the start of the call. A replay of the webcast will be available two hours after the call and archived on the same web page for six months.

Use of Non-GAAP Financial Measures

In addition to reporting financial results in accordance with generally accepted accounting principles, or GAAP, the Company provides adjusted EBITDA, adjusted income, adjusted earnings per share (“adjusted EPS”) and free cash flow, which are non-GAAP financial measures. Adjusted EBITDA, adjusted income, and adjusted EPS exclude certain non-cash and other specified charges. The Company believes these non-GAAP financial measures are useful to help investors understand its past financial performance and prospects for the future. However, these non-GAAP measures should not be considered in isolation or as a substitute for financial information provided in accordance with GAAP. Management believes these non-GAAP measures assist in providing a more complete understanding of the Company’s underlying operational results and trends, and management uses these measures along with the corresponding GAAP financial measures to manage the Company’s business, to evaluate its performance compared to prior periods and the marketplace, and to establish operational goals. A reconciliation of GAAP to non-GAAP financial results discussed in this press release is contained in the attached exhibits.

50 Minuteman Road, Andover, Massachusetts 01810 U.S.A. | +1-(978)-256-1300 | www.mrcy.com | X: @MRCY

Mercury Reports Fourth Quarter and Fiscal 2025 Results, Page 5

Mercury Systems – Innovation that Matters®

Mercury Systems is a technology company that delivers mission-critical processing power to the edge, making advanced technologies profoundly more accessible for today’s most challenging aerospace and defense missions. The Mercury Processing Platform allows customers to tap into innovative capabilities from silicon to system scale, turning data into decisions on timelines that matter. Mercury’s products and solutions are deployed in more than 300 programs and across 35 countries, enabling a broad range of applications in mission computing, sensor processing, command and control, and communications. Mercury is headquartered in Andover, Massachusetts, and has more than 20 locations worldwide. To learn more, visit mrcy.com. (Nasdaq: MRCY)

Investors and others should note that we announce material financial information using our website (www.mrcy.com), SEC filings, press releases, public conference calls, webcasts, and social media, including X (X.com/mrcy) and LinkedIn (www.linkedin.com/company/mercury-systems). Therefore, we encourage investors and others interested in Mercury to review the information we post on the social media and other communication channels listed on our website.

50 Minuteman Road, Andover, Massachusetts 01810 U.S.A. | +1-(978)-256-1300 | www.mrcy.com | X: @MRCY

Mercury Reports Fourth Quarter and Fiscal 2025 Results, Page 6

Forward-Looking Safe Harbor Statement

This press release contains certain forward-looking statements, as that term is defined in the Private Securities Litigation Reform Act of 1995, including those relating to the Company's focus on enhanced execution of the Company's strategic plan. You can identify these statements by the words “may,” “will,” “could,” “should,” “would,” “plans,” “expects,” “anticipates,” “continue,” “estimate,” “project,” “intend,” “likely,” “forecast,” “probable,” “potential,” and similar expressions. These forward-looking statements involve risks and uncertainties that could cause actual results to differ materially from those projected or anticipated. Such risks and uncertainties include, but are not limited to, continued funding of defense programs, the timing and amounts of such funding, general economic and business conditions, including unforeseen weakness in the Company’s markets, effects of any U.S. federal government shutdown or extended continuing resolution, effects of geopolitical unrest and regional conflicts, competition, changes in technology and methods of marketing, delays in or cost increases related to completing development, engineering and manufacturing programs, changes in customer order patterns, changes in product mix, continued success in technological advances and delivering technological innovations, changes in, or in the U.S. government’s interpretation of, federal export control or procurement rules and regulations, including tariffs, changes in, or in the interpretation or enforcement of, environmental rules and regulations, market acceptance of the Company's products, shortages in or delays in receiving components, supply chain delays or volatility for critical components, production delays or unanticipated expenses including due to quality issues or manufacturing execution issues, adherence to required manufacturing standards, capacity underutilization, increases in scrap or inventory write-offs, failure to achieve or maintain manufacturing quality certifications, such as AS9100, failure to achieve or maintain qualified business systems, such as those required by the DFARS, the impact of supply chain disruption, inflation and labor shortages, among other things, on program execution and the resulting effect on customer satisfaction, inability to fully realize the expected benefits from acquisitions, restructurings, and operational efficiency initiatives or delays in realizing such benefits, challenges in integrating acquired businesses and achieving anticipated synergies, effects of shareholder activism, increases in interest rates, changes to industrial security and cyber-security regulations and requirements and impacts from any cyber or insider threat events, changes in tax rates or tax regulations, changes to interest rate swaps or other cash flow hedging arrangements, changes to generally accepted accounting principles, difficulties in retaining key employees and customers, litigation, including the dispute arising with the former CEO over his resignation, unanticipated costs under fixed-price service and system integration engagements, and various other factors beyond our control. These risks and uncertainties also include such additional risk factors as are discussed in the Company's filings with the U.S. Securities and Exchange Commission, including its Annual Report on Form 10-K for the fiscal year ended June 27, 2025 and subsequent Quarterly Reports on Form 10-Q and Current Reports on Form 8-K. The Company cautions readers not to place undue reliance upon any such forward-looking statements, which speak only as of the date made. The Company undertakes no obligation to update any forward-looking statement to reflect events or circumstances after the date on which such statement is made.

#

Contact:

Tyler Hojo, CFA, Vice President of Investor Relations

Mercury Systems, Inc.

978-967-3676

50 Minuteman Road, Andover, Massachusetts 01810 U.S.A. | +1-(978)-256-1300 | www.mrcy.com | X: @MRCY

Mercury Reports Fourth Quarter and Fiscal 2025 Results, Page 7

Mercury Systems and Innovation That Matters are registered trademarks of Mercury Systems, Inc. Other product and company names mentioned may be trademarks and/or registered trademarks of their respective holders.

50 Minuteman Road, Andover, Massachusetts 01810 U.S.A. | +1-(978)-256-1300 | www.mrcy.com | X: @MRCY

Mercury Reports Fourth Quarter and Fiscal 2025 Results, Page 8

MERCURY SYSTEMS, INC.
UNAUDITED CONSOLIDATED BALANCE SHEETS
(In thousands)
June 27, June 28,
2025 2024
Assets
Current assets:
Cash and cash equivalents $ 309,099 $ 180,521
Accounts receivable, net 109,588 111,441
Unbilled receivables and costs in excess of billings, net 278,475 304,029
Inventory 332,920 335,300
Prepaid income taxes 457
Prepaid expenses and other current assets 27,639 22,493
Total current assets 1,058,178 953,784
Property and equipment, net 101,440 110,353
Goodwill 938,093 938,093
Intangible assets, net 210,611 250,512
Operating lease right-of-use assets, net 52,264 60,860
Deferred tax asset 69,016 58,612
Other non-current assets 5,162 6,691
Total assets $ 2,434,764 $ 2,378,905
Liabilities and Shareholders’ Equity
Current liabilities:
Accounts payable $ 79,116 $ 81,068
Accrued expenses 43,143 42,926
Accrued compensation 51,321 36,398
Income taxes payable 109
Deferred revenues and customer advances 126,797 73,915
Total current liabilities 300,377 234,416
Income taxes payable 4,046 7,713
Long-term debt 591,500 591,500
Operating lease liabilities 52,738 62,584
Other non-current liabilities 12,642 9,917
Total liabilities 961,303 906,130
Shareholders’ equity:
Preferred stock
Common stock 590 581
Additional paid-in capital 1,287,478 1,242,402
Retained earnings 181,895 219,799
Accumulated other comprehensive income 3,498 9,993
Total shareholders’ equity 1,473,461 1,472,775
Total liabilities and shareholders’ equity $ 2,434,764 $ 2,378,905

50 Minuteman Road, Andover, Massachusetts 01810 U.S.A. | +1-(978)-256-1300 | www.mrcy.com | X: @MRCY

Mercury Reports Fourth Quarter and Fiscal 2025 Results, Page 9

MERCURY SYSTEMS, INC.
UNAUDITED CONSOLIDATED STATEMENTS OF OPERATIONS
(In thousands, except per share data)
Fourth Quarters Ended Twelve Months Ended
June 27, 2025 June 28, 2024 June 27, 2025 June 28, 2024
Net revenues $ 273,106 $ 248,563 $ 912,020 $ 835,275
Cost of revenues(1) 188,338 175,351 657,526 639,374
Gross margin 84,768 73,212 254,494 195,901
Operating expenses:
Selling, general and administrative(1) 37,714 43,365 154,412 166,786
Research and development(1) 11,913 19,417 67,647 101,328
Amortization of intangible assets 10,275 11,311 42,849 47,661
Restructuring and other charges (15) 6,781 7,216 26,170
Acquisition costs and other related expenses 1,331 306 1,997 1,710
Total operating expenses 61,218 81,180 274,121 343,655
Income (loss) from operations 23,550 (7,968) (19,627) (147,754)
Interest income 1,367 525 3,607 1,199
Interest expense (8,026) (9,159) (33,430) (35,015)
Other income (expense), net 1,926 (1,999) (974) (7,705)
Income (loss) before income tax (benefit) expense 18,817 (18,601) (50,424) (189,275)
Income tax expense (benefit) 2,447 (7,824) (12,520) (51,635)
Net income (loss) $ 16,370 $ (10,777) $ (37,904) $ (137,640)
Basic net earnings (loss) per share $ 0.28 $ (0.19) $ (0.65) $ (2.38)
Diluted net earnings (loss) per share $ 0.27 $ (0.19) $ (0.65) $ (2.38)
Weighted-average shares outstanding:
Basic 58,924 57,974 58,746 57,738
Diluted 59,540 57,974 58,746 57,738
(1) Includes stock-based compensation expense, allocated as follows:
Cost of revenues $ 446 $ 800 $ 1,205 $ 2,919
Selling, general and administrative $ 653 $ 5,310 $ 17,809 $ 16,936
Research and development $ 1,318 $ 1,136 $ 6,005 $ 5,814

50 Minuteman Road, Andover, Massachusetts 01810 U.S.A. | +1-(978)-256-1300 | www.mrcy.com | X: @MRCY

Mercury Reports Fourth Quarter and Fiscal 2025 Results, Page 10

MERCURY SYSTEMS, INC.
UNAUDITED CONDENSED CONSOLIDATED STATEMENTS OF CASH FLOWS
(In thousands)
Fourth Quarters Ended Twelve Months Ended
June 27, 2025 June 28, 2024 June 27, 2025 June 28, 2024
Cash flows from operating activities:
Net income (loss) $ 16,370 $ (10,777) $ (37,904) $ (137,640)
Depreciation and amortization 19,969 21,391 82,027 88,030
Other non-cash items, net 6,953 286 26,627 25,764
Cash settlement for termination of interest rate swap 7,403
Changes in operating assets and liabilities (5,217) 60,861 68,101 76,825
Net cash provided by operating activities 38,075 71,761 138,851 60,382
Cash flows from investing activities:
Purchases of property and equipment (4,098) (10,348) (19,803) (34,291)
Acquisition of assets and businesses, net of cash acquired (4,543) (4,543)
Proceeds from sale of manufacturing operations to Cicor Group 6,246 6,246
Other investing activities 4,600
Net cash used in investing activities (2,395) (10,348) (13,500) (34,291)
Cash flows from financing activities:
Proceeds from employee stock plans 2,169 1,479 3,661 4,642
Borrowings under credit facilities 105,000
Payments under credit facilities (25,000) (25,000)
Payments of deferred financing and offering costs (2,249) (1,931)
Payments for retirement of common stock (16) (31)
Net cash provided by (used in) financing activities 2,169 (23,537) 1,412 82,680
Effect of exchange rate changes on cash and cash equivalents 1,428 1,815 187
Net increase in cash and cash equivalents 39,277 37,876 128,578 108,958
Cash and cash equivalents at beginning of period 269,822 142,645 180,521 71,563
Cash and cash equivalents at end of period $ 309,099 $ 180,521 $ 309,099 $ 180,521

50 Minuteman Road, Andover, Massachusetts 01810 U.S.A. | +1-(978)-256-1300 | www.mrcy.com | X: @MRCY

Mercury Reports Fourth Quarter and Fiscal 2025 Results, Page 11

UNAUDITED SUPPLEMENTAL INFORMATION RECONCILIATION OF GAAP TO NON-GAAP MEASURES
(In thousands)

Adjusted EBITDA, a non-GAAP measure for reporting financial performance, excludes the impact of certain items and, therefore, has not been calculated in accordance with GAAP. Management believes that exclusion of these items assists in providing a more complete understanding of the Company’s underlying results and trends, and management uses these measures along with the corresponding GAAP financial measures to manage the Company’s business, to evaluate its performance compared to prior periods and the marketplace, and to establish operational goals. The adjustments to calculate this non-GAAP financial measure, and the basis for such adjustments, are outlined below:

Other non-operating adjustments. The Company records other non-operating adjustments such as gains or losses on foreign currency remeasurement, investments and fixed asset sales or disposals among other adjustments. These adjustments may vary from period to period without any direct correlation to underlying operating performance.

Interest income and expense. The Company receives interest income on investments and incurs interest expense on loans, financing leases and other financing arrangements. These amounts may vary from period to period due to changes in cash and debt balances and interest rates driven by general market conditions or other circumstances which may be outside of the normal course of the Company’s operations.

Income taxes. The Company’s GAAP tax expense can fluctuate materially from period to period due to tax adjustments that are not directly related to underlying operating performance or to the current period of operations.

Depreciation. The Company incurs depreciation expense related to capital assets purchased to support the ongoing operations of the business. These assets are recorded at cost or fair value and are depreciated using the straight-line method over the useful life of the asset. Purchases of such assets may vary significantly from period to period and without any direct correlation to underlying operating performance.

Amortization of intangible assets. The Company incurs amortization of intangible assets primarily as a result of acquired intangible assets such as backlog, customer relationships and completed technologies but also due to licenses, patents and other arrangements. These intangible assets are valued at the time of acquisition or upon receipt of right to use the asset, amortized over the requisite life and generally cannot be changed or influenced by management after acquisition.

Restructuring and other charges. The Company incurs restructuring and other charges in connection with management’s decisions to undertake certain actions to realign operating expenses through workforce reductions and the closure of certain Company facilities, businesses and lines of business. The Company’s adjustments reflected in restructuring and other charges are typically related to acquisitions and organizational redesign programs initiated as part of discrete post-acquisition integration activities. Management believes these items are non-routine and may not be indicative of ongoing operating results.

Impairment of long-lived assets. The Company incurs impairment charges of long-lived assets based on events that may or may not be within the control of management. Management believes these items are outside the normal operations of the Company’s business and are not indicative of ongoing operating results.

50 Minuteman Road, Andover, Massachusetts 01810 U.S.A. | +1-(978)-256-1300 | www.mrcy.com | X: @MRCY

Mercury Reports Fourth Quarter and Fiscal 2025 Results, Page 12

Acquisition, financing and other third party costs. The Company incurs transaction costs related to acquisition and potential acquisition opportunities, such as legal, accounting, and other third party advisory fees. The Company may also incur third party costs, such as legal, banking, communications, proxy solicitation, and other third party advisory fees in connection with engagements by activist investors or unsolicited acquisition offers. Although the Company may incur such third party costs and other related charges and adjustments, it is not indicative that any transaction will be consummated. Additionally, the Company incurs unused revolver and bank fees associated with maintaining its credit facility as well as non-cash financing expenses associated with obtaining its credit facility. Management believes these items are outside the normal operations of the Company’s business and are not indicative of ongoing operating results.

Fair value adjustments from purchase accounting. As a result of applying purchase accounting rules to acquired assets and liabilities, certain fair value adjustments are recorded in the opening balance sheet of acquired companies. These adjustments are then reflected in the Company’s income statements in periods subsequent to the acquisition. In addition, the impact of any changes to originally recorded contingent consideration amounts are reflected in the income statements in the period of the change. Management believes these items are outside the normal operations of the Company and are not indicative of ongoing operating results.

Litigation and settlement income and expense. The Company periodically receives income and incurs expenses related to pending claims and litigation and associated legal fees and potential case settlements and/or judgments. Although the Company may incur such costs and other related charges and adjustments, it is not indicative of any particular outcome until the matter is fully resolved. Management believes these items are outside the normal operations of the Company’s business, often occur in periods other than the period of activity, and are not indicative of ongoing operating results. The Company periodically receives warranty claims from customers and makes warranty claims towards its vendors and supply chain. Management believes the expenses and gains associated with these recurring warranty items are within the normal operations and operating cycle of the Company’s business. Therefore, management deems no adjustments are necessary unless under extraordinary circumstances.

Stock-based and other non-cash compensation expense. The Company incurs expense related to stock-based compensation included in its GAAP presentation of cost of revenues, selling, general and administrative expense and research and development expense. The Company also incurs non-cash based compensation in the form of pension related expenses and matching contributions to its defined contribution plan. Although stock-based and other non-cash compensation is an expense of the Company and viewed as a form of compensation, these expenses vary in amount from period to period, and are affected by market forces that are difficult to predict and are not within the control of management, such as the market price and volatility of the Company’s shares, risk-free interest rates and the expected term and forfeiture rates of the awards, as well as pension actuarial assumptions. Management believes that exclusion of these expenses allows comparisons of operating results to those of other companies, both public, private or foreign, that disclose non-GAAP financial measures that exclude stock-based compensation and other non-cash compensation.

Mercury uses adjusted EBITDA as an important indicator of the operating performance of its business. Management excludes the above-described items from its internal forecasts and models when establishing internal operating budgets, supplementing the financial results and forecasts reported to the Company’s board of directors, determining a portion of bonus compensation for executive officers and other key employees based on operating performance, evaluating short-term and long-term operating trends in the Company’s operations, and allocating resources to various initiatives and operational requirements. The Company believes that adjusted EBITDA permits a comparative assessment of its operating performance, relative to its performance based on its GAAP results, while isolating the effects of charges that may vary from period to period without direct correlation to underlying operating performance. The Company believes that these non-GAAP financial adjustments are useful to investors because they allow investors to evaluate the effectiveness of the methodology and information used by management in its financial and operational decision-making. The Company believes that trends in its adjusted EBITDA are valuable indicators of its operating performance.

50 Minuteman Road, Andover, Massachusetts 01810 U.S.A. | +1-(978)-256-1300 | www.mrcy.com | X: @MRCY

Mercury Reports Fourth Quarter and Fiscal 2025 Results, Page 13

Adjusted EBITDA is a non-GAAP financial measure and should not be considered in isolation or as a substitute for financial information provided in accordance with GAAP. This non-GAAP financial measure may not be computed in the same manner as similarly titled measures used by other companies. The Company expects to continue to incur expenses similar to the adjusted EBITDA financial adjustments described above, and investors should not infer from the Company’s presentation of this non-GAAP financial measure that these costs are unusual, infrequent or non-recurring.

The following table reconciles the most directly comparable GAAP financial measure to the non-GAAP financial measure.

Fourth Quarters Ended Twelve Months Ended
June 27, 2025 June 28, 2024 June 27, 2025 June 28, 2024
Net income (loss) $ 16,370 $ (10,777) $ (37,904) $ (137,640)
Other non-operating adjustments, net (4,645) (217) (7,742) (592)
Interest expense, net 6,659 8,634 29,823 33,816
Income tax expense (benefit) 2,447 (7,824) (12,520) (51,635)
Depreciation 9,694 10,080 39,178 40,369
Amortization of intangible assets 10,275 11,311 42,849 47,661
Restructuring and other charges (15) 6,781 7,216 26,170
Impairment of long-lived assets
Acquisition, financing and other third party costs 2,126 1,400 6,638 4,370
Fair value adjustments from purchase accounting 131 178 617 710
Litigation and settlement expense, net 4,062 945 13,010 4,927
Stock-based and other non-cash compensation expense 4,165 10,650 38,273 41,257
Adjusted EBITDA $ 51,269 $ 31,161 $ 119,438 $ 9,413

50 Minuteman Road, Andover, Massachusetts 01810 U.S.A. | +1-(978)-256-1300 | www.mrcy.com | X: @MRCY

Mercury Reports Fourth Quarter and Fiscal 2025 Results, Page 14

Free cash flow, a non-GAAP measure for reporting cash flow, is defined as cash provided by operating activities less capital expenditures for property and equipment, which includes capitalized software development costs, and, therefore, has not been calculated in accordance with GAAP. Management believes free cash flow provides investors with an important perspective on cash available for investment and acquisitions after making capital investments required to support ongoing business operations and long-term value creation. The Company believes that trends in its free cash flow are valuable indicators of its operating performance and liquidity.

Free cash flow is a non-GAAP financial measure and should not be considered in isolation or as a substitute for financial information provided in accordance with GAAP. This non-GAAP financial measure may not be computed in the same manner as similarly titled measures used by other companies. The Company expects to continue to incur expenditures similar to the free cash flow financial adjustment described above, and investors should not infer from the Company’s presentation of this non-GAAP financial measure that these expenditures reflect all of the Company's obligations which require cash.

The following table reconciles the most directly comparable GAAP financial measure to the non-GAAP financial measure.

Fourth Quarters Ended Twelve Months Ended
June 27, 2025 June 28, 2024 June 27, 2025 June 28, 2024
Net cash provided by operating activities $ 38,075 $ 71,761 $ 138,851 $ 60,382
Purchases of property and equipment (4,098) (10,348) (19,803) (34,291)
Free cash flow $ 33,977 $ 61,413 $ 119,048 $ 26,091

50 Minuteman Road, Andover, Massachusetts 01810 U.S.A. | +1-(978)-256-1300 | www.mrcy.com | X: @MRCY

Mercury Reports Fourth Quarter and Fiscal 2025 Results, Page 15

UNAUDITED SUPPLEMENTAL INFORMATION RECONCILIATION OF GAAP TO NON-GAAP MEASURES
(In thousands, except per share data)

Adjusted income and adjusted earnings per share (“adjusted EPS”) are non-GAAP measures for reporting financial performance, exclude the impact of certain items and, therefore, have not been calculated in accordance with GAAP. Management believes that exclusion of these items assists in providing a more complete understanding of the Company’s underlying results and trends and allows for comparability with its peer company index and industry. These non-GAAP financial measures may not be computed in the same manner as similarly titled measures used by other companies. The Company uses these measures along with the corresponding GAAP financial measures to manage the Company’s business and to evaluate its performance compared to prior periods and the marketplace. The Company defines adjusted income as income before other non-operating adjustments, amortization of intangible assets, restructuring and other charges, impairment of long-lived assets, acquisition, financing and other third party costs, fair value adjustments from purchase accounting, litigation and settlement income and expense, and stock-based and other non-cash compensation expense. The impact to income taxes includes the impact to the effective tax rate, current tax provision and deferred tax provision(1). Adjusted EPS expresses adjusted income on a per share basis using weighted average diluted shares outstanding.

The following tables reconcile the most directly comparable GAAP financial measures to the non-GAAP financial measures.

June 28, 2024
Net income (loss) and earnings (loss) per share 16,370 $ 0.27 $ (10,777) $ (0.19)
Other non-operating adjustments, net (217)
Amortization of intangible assets 11,311
Restructuring and other charges 6,781
Impairment of long-lived assets
Acquisition, financing and other third party costs 1,400
Fair value adjustments from purchase accounting 178
Litigation and settlement expense, net 945
Stock-based and other non-cash compensation expense 10,650
Impact to income taxes(1) (7,033)
Adjusted income and adjusted earnings per share(2) 27,893 $ 0.47 $ 13,238 $ 0.23
Diluted weighted-average shares outstanding 59,540 58,048
(1) Impact to income taxes is calculated by recasting income before income taxes to include the items involved in determining adjusted income and recalculating the income tax provision using this adjusted income from operations before income taxes. The recalculation also adjusts for any discrete tax expense or benefit related to the items.
(2) Adjusted earnings per share is calculated using diluted shares whereas Net loss per share or Adjusted loss per share is calculated using basic shares. There was a 0.01 impact to the calculation of adjusted earnings per share as a result of this for the fourth quarters ended June 28, 2024.

All values are in US Dollars.

50 Minuteman Road, Andover, Massachusetts 01810 U.S.A. | +1-(978)-256-1300 | www.mrcy.com | X: @MRCY

Mercury Reports Fourth Quarter and Fiscal 2025 Results, Page 16

June 28, 2024
Net loss and loss per share (37,904) $ (0.65) $ (137,640) $ (2.38)
Other non-operating adjustments, net (592)
Amortization of intangible assets 47,661
Restructuring and other charges 26,170
Impairment of long-lived assets
Acquisition, financing and other third party costs 4,370
Fair value adjustments from purchase accounting 710
Litigation and settlement expense, net 4,927
Stock-based and other non-cash compensation expense 41,257
Impact to income taxes(1) (26,621)
Adjusted income (loss) and adjusted earnings (loss) per share(2) 37,866 $ 0.64 $ (39,758) $ (0.69)
Diluted weighted-average shares outstanding 59,203 57,738
(1) Impact to income taxes is calculated by recasting income before income taxes to include the items involved in determining adjusted income and recalculating the income tax provision using this adjusted income from operations before income taxes. The recalculation also adjusts for any discrete tax expense or benefit related to the items.
(2) Adjusted earnings per share is calculated using diluted shares whereas Net loss per share is calculated using basic shares. There was a 0.01 impact to the calculation of adjusted earnings per share as a result of this for the twelve months ended June 27, 2025 and June 28, 2024, respectively.

All values are in US Dollars.

50 Minuteman Road, Andover, Massachusetts 01810 U.S.A. | +1-(978)-256-1300 | www.mrcy.com | X: @MRCY

q4fy25earningspresentati

© Mercury Systems, Inc. WEBCAST LOGIN AT WWW.MRCY.COM/INVESTOR WEBCAST REPLAY AVAILABLE BY 7:00 P.M. ET AUGUST 11, 2025 Bill Ballhaus Chairman and CEO David Farnsworth Executive Vice President and CFO August 11, 2025, 5:00 pm ET FOURTH QUARTER AND FISCAL YEAR 2025 FINANCIAL RESULTS 1


© Mercury Systems, Inc. /Mercury Proprietary/No Tech Data/ Forward-looking safe harbor statement This presentation contains certain forward-looking statements, as that term is defined in the Private Securities Litigation Reform Act of 1995, including those relating to the Company's focus on enhanced execution of the Company's strategic plan. You can identify these statements by the words “may,” “will,” “could,” “should,” “would,” “plans,” “expects,” “anticipates,” “continue,” “estimate,” “project,” “intend,” “likely,” “forecast,” “probable,” “potential,” and similar expressions. These forward-looking statements involve risks and uncertainties that could cause actual results to differ materially from those projected or anticipated. Such risks and uncertainties include, but are not limited to, continued funding of defense programs, the timing and amounts of such funding, general economic and business conditions, including unforeseen weakness in the Company’s markets, effects of any U.S. federal government shutdown or extended continuing resolution, effects of geopolitical unrest and regional conflicts, competition, changes in technology and methods of marketing, delays in or cost increases related to completing development, engineering and manufacturing programs, changes in customer order patterns, changes in product mix, continued success in technological advances and delivering technological innovations, changes in, or in the U.S. government’s interpretation of, federal export control or procurement rules and regulations, including tariffs, changes in, or in the interpretation or enforcement of, environmental rules and regulations, market acceptance of the Company's products, shortages in or delays in receiving components, supply chain delays or volatility for critical components, production delays or unanticipated expenses including due to quality issues or manufacturing execution issues, adherence to required manufacturing standards, capacity underutilization, increases in scrap or inventory write-offs, failure to achieve or maintain manufacturing quality certifications, such as AS9100, failure to achieve or maintain qualified business systems, such as those required by the DFARS, the impact of supply chain disruption, inflation and labor shortages, among other things, on program execution and the resulting effect on customer satisfaction, inability to fully realize the expected benefits from acquisitions, restructurings, and operational efficiency initiatives or delays in realizing such benefits, challenges in integrating acquired businesses and achieving anticipated synergies, effects of shareholder activism, increases in interest rates, changes to industrial security and cyber-security regulations and requirements and impacts from any cyber or insider threat events, changes in tax rates or tax regulations, changes to interest rate swaps or other cash flow hedging arrangements, changes to generally accepted accounting principles, difficulties in retaining key employees and customers, litigation, including the dispute arising with the former CEO over his resignation, unanticipated costs under fixed-price service and system integration engagements, and various other factors beyond our control. These risks and uncertainties also include such additional risk factors as are discussed in the Company's filings with the U.S. Securities and Exchange Commission, including its Annual Report on Form 10-K for the fiscal year ended June 27, 2025 and subsequent Quarterly Reports on Form 10-Q and Current Reports on Form 8-K. The Company cautions readers not to place undue reliance upon any such forward-looking statements, which speak only as of the date made. The Company undertakes no obligation to update any forward-looking statement to reflect events or circumstances after the date on which such statement is made. Use of Non-GAAP (Generally Accepted Accounting Principles) Financial Measures In addition to reporting financial results in accordance with generally accepted accounting principles, or GAAP, the Company provides adjusted EBITDA, adjusted income, adjusted EPS, and free cash flow, which are non-GAAP financial measures. Adjusted EBITDA, adjusted income, and adjusted EPS exclude certain non-cash and other specified charges. The Company believes these non- GAAP financial measures are useful to help investors better understand its past financial performance and prospects for the future. However, these non-GAAP measures should not be considered in isolation or as a substitute for financial information provided in accordance with GAAP. Management believes these non-GAAP measures assist in providing a more complete understanding of the Company’s underlying operational results and trends, and management uses these measures along with the corresponding GAAP financial measures to manage the Company’s business, to evaluate its performance compared to prior periods and the marketplace, and to establish operational goals. A reconciliation of GAAP to non-GAAP financial results discussed in this presentation is contained in the Appendix hereto. 2


© Mercury Systems, Inc. /Mercury Proprietary/No Tech Data/ Today’s call  Opening remarks on business and results  Update on our four focus areas  Performance expectations for FY26 and beyond  Q&A 3


© Mercury Systems, Inc. /Mercury Proprietary/No Tech Data/ Business and results  Results reflect our expectation to deliver robust organic growth, expanding margins, and positive free cash flow.  Record quarterly bookings of $342M and a 1.25 book-to-bill.  Q4 revenue of $273M, up 9.9% year-over-year; and full-year revenue of $912M up 9.2% year-over- year.  Q4 Adjusted EBITDA of $51M and adjusted EBITDA margin of 18.8%; full-year EBITDA of $119M and adjusted EBITDA margin of 13.1%, all up substantially year-over-year.  Free cash flow of $34M, resulting in record full-year free cash flow of $119M. Ended Q4 with $309M of cash on hand.  Solid execution across our broad portfolio of production and development programs.  Reduced operating expense enabling increased positive operating leverage.  Continued progress on free cash flow drivers with net working capital down $90M year-over-year. 4


© Mercury Systems, Inc. /Mercury Proprietary/No Tech Data/ Delivering predictable performance  Our focus on performance excellence positively impacted our results primarily in two areas: • Net adverse EAC change impacts were in line with recent quarters, reflects maturing capabilities in program management, engineering, and operations, and progress in completing development programs. • Focus on accelerating customer deliveries generated approximately $30M of revenue and approximately $15M of adjusted EBITDA planned for FY26. 5


© Mercury Systems, Inc. /Mercury Proprietary/No Tech Data/ Driving organic growth  Q4 record bookings of $342M resulted in a record backlog of 1.4B and a full-year book-to-bill of 1.13.  Key contract awards received in the quarter included: • Awards totaling $36.9 million for ground-based radar programs that leverage our Common Processing Architecture and cybersecurity software. • A $22 million initial production contract from a U.S. defense prime contractor for sensor processing subsystems that will upgrade existing combat aircraft. • An $8.5 million contract to develop a next-generation RF signal conditioning solution to enhance the performance and cost of X-band Active Electronically Steered Array radars. • A new production agreement that supports a critical U.S. military space program. 6


© Mercury Systems, Inc. /Mercury Proprietary/No Tech Data/ Expanding margins  Remain focused on the following levers in our efforts to achieve targeted adjusted EBITDA margins in the low to mid 20% range: ‒ Backlog margin expansion as we burn down lower margin backlog and replace with new bookings aligned with our target margin profile. ‒ Ongoing initiatives to simplify, automate, and optimize our operations. ‒ Driving organic growth to realize positive operating leverage.  Q4 adjusted EBITDA margin of 18.8% was ahead of our expectations and up sequentially over 700 basis points.  Gross margin of 31% increased 160 basis points year-over-year; in line with our expectations and largely driven by the average margin in our backlog.  Operating expenses were down year-over-year as a result of fully realizing the impact of previously implemented actions to simplify, streamline, and focus our operations. 7


© Mercury Systems, Inc. /Mercury Proprietary/No Tech Data/ Driving improved free cash flow conversion and release  Progress on drivers of free cash flow. Net working capital is down $211M from peak net working capital levels in Q1 of FY24.  Full year FCF is $119M, and net debt is down to $282M the lowest level since Q1 of FY22.  Focused on continued reduction in working capital and net debt going forward. 8


© Mercury Systems, Inc. /Mercury Proprietary/No Tech Data/ Expectations for FY26 and beyond  Optimistic on achieving our target profile over time of above market top-line growth, adjusted EBITDA margins in the low to mid 20% range, and FCF conversion of 50%.  Expect full year fiscal 2026 revenue growth of low single-digits; first half relatively flat year-over-year and volume increasing sequentially as we move through the second half.  Revenue outlook contemplates: • ~$30M of accelerated deliveries into Q4 of FY25 (out of FY26) • Expectation that factory capacity allocated to programs with unbilled receivable balances results in FCF generation with little revenue impact.  Expect fiscal year 2026 full-year adjusted EBITDA margin approaching mid-teens. • Low double-digit margins in the 1H and then expanding in the 2H with Q4 margin expected to be the highest of the fiscal year.  Expect to be free cash flow positive in fiscal 2026. 9


© Mercury Systems, Inc. /Mercury Proprietary/No Tech Data/ Notes 1. Non-GAAP, see reconciliation table. 2. All references in this presentation to the fourth quarter of fiscal 2025 are to the quarter ended June 27, 2025. All references in this presentation to the fourth quarter of fiscal 2024 are to the quarter ended June 28, 2024. Q4 FY25 vs. Q4 FY24 10 $ millions, except percentage and per share data Q4 FY25(2) Q4 FY24(2) CHANGE Bookings $341.5 $284.4 20% Book-to-Bill 1.25 1.14 Backlog $1,404.9 $1,325.7 6% 12-Month Backlog 807.8 758.9 Revenue $273.1 $248.6 10% Gross Margin 31.0% 29.5% 160 bps Operating Expenses $61.2 $81.2 (25%)Selling, General & Administrative 37.7 43.4 Research & Development 11.9 19.4 Amortization/Restructuring/Acquisition 11.6 18.4 GAAP Net Income (Loss) $16.4 ($10.8) N.A. GAAP Net Income (Loss) Per Share $0.27 ($0.19) N.A. Weighted Average Diluted Shares 59.5 58.0 Adjusted EPS(1) $0.47 $0.23 104% Adj. EBITDA(1) $51.3 $31.2 64% % of revenue 18.8% 12.5% Operating Cash Flow $38.1 $71.8 (47%) Free Cash Flow(1) $34.0 $61.4 (45%) % of Adjusted EBITDA 66.3% 197.1%


© Mercury Systems, Inc. /Mercury Proprietary/No Tech Data/ Notes 1. Non-GAAP, see reconciliation table. 2. All references in this presentation to the fourth quarter of fiscal 2025 are to the quarter ended June 27, 2025. All references in this presentation to the fourth quarter of fiscal 2024 are to the quarter ended June 28, 2024. Fiscal Year 2025 vs. Fiscal Year 2024 11 $ millions, except percentage and per share data FY25(2) FY24(2) CHANGE Bookings $1,032.1 $1,021.2 1% Book-to-Bill 1.13 1.22 Backlog $1,404.9 $1,325.7 6% 12-Month Backlog 807.8 758.9 Revenue $912.0 $835.3 9% Gross Margin 27.9% 23.5% 440 bps Operating Expenses $274.1 $343.7 (20%)Selling, General & Administrative 154.4 166.8 Research & Development 67.6 101.3 Amortization/Restructuring/Acquisition 52.1 75.6 GAAP Net Loss ($37.9) ($137.6) N.A. GAAP Net Loss Per Share ($0.65) ($2.38) N.A. Weighted Average Diluted Shares 58.7 57.7 Adjusted EPS(1) $0.64 ($0.69) N.A. Adj. EBITDA(1) $119.4 $9.4 1,169% % of revenue 13.1% 1.1% Operating Cash Flow $138.9 $60.4 130% Free Cash Flow(1) $119.0 $26.1 356% % of Adjusted EBITDA 99.7% 277.2%


© Mercury Systems, Inc. /Mercury Proprietary/No Tech Data/ Notes 1. Rounded amounts used. Balance sheet 12 As of (In $ millions)(1) 6/28/24 9/27/24 12/27/24 3/28/25 6/27/25 ASSETS Cash & cash equivalents $180.5 $158.1 $242.6 $269.8 $309.1 Accounts receivable and unbilled receivables, net 415.5 422.8 383.1 374.7 388.1 Inventory, net 335.3 351.1 344.4 352.7 332.9 PP&E, net 110.4 105.1 111.5 107.5 101.4 Goodwill and intangibles, net 1,188.6 1,177.4 1,164.2 1,154.1 1,148.7 Other 148.6 154.5 155.7 155.6 154.6 TOTAL ASSETS $2,378.9 $2,369.0 $2,401.5 $2,414.4 $2,434.8 LIABILITIES AND S/E AP and accrued expenses $160.4 $135.4 $137.3 $154.1 $173.6 Deferred revenues and customer advances 73.9 96.3 136.0 142.5 126.8 Other liabilities 80.3 86.0 76.4 75.2 69.4 Debt 591.5 591.5 591.5 591.5 591.5 Total liabilities 906.1 909.2 941.2 963.3 961.3 Stockholders' equity 1,472.8 1,459.8 1,460.3 1,451.1 1,473.5 TOTAL LIABILITIES AND S/E $2,378.9 $2,369.0 $2,401.5 $2,414.4 $2,434.8


© Mercury Systems, Inc. /Mercury Proprietary/No Tech Data/ Notes 1. Rounded amounts used. 2. Non-GAAP, see reconciliation table. Cash flow summary 13 For the Fiscal Quarters Ended (In $ millions)(1) 6/28/24 9/27/24 12/27/24 3/28/25 6/27/25 Net (loss) income ($10.8) ($17.5) ($17.6) ($19.2) $16.4 Depreciation and amortization 21.4 21.2 20.9 19.9 20.0 Other non-cash items, net 0.3 5.6 5.1 9.0 6.9 Changes in Operating Assets and Liabilities Accounts receivable, unbilled receivables, and costs in excess of billings (1.9) (6.1) 37.6 9.3 (10.8) Inventory 7.1 (13.9) (7.9) (7.3) 12.0 Accounts payable and accrued expenses 26.6 (27.0) 7.2 14.5 13.4 Other 29.1 23.0 40.2 3.8 (19.8) 60.9 (24.0) 77.1 20.2 (5.2) Operating Cash Flow 71.8 (14.7) 85.5 30.0 38.1 Capital expenditures (10.4) (6.2) (3.6) (5.9) (4.1) Free Cash Flow(2) $61.4 ($20.9) $81.9 $24.1 $34.0 Free Cash Flow(2) / Adjusted EBITDA(2) 197.1% N.A. 372.3% 97.6% 66.3% Free Cash Flow(2) / GAAP Net (Loss) Income N.A. N.A. N.A. N.A. 208%


© Mercury Systems, Inc. APPENDIX


© Mercury Systems, Inc. /Mercury Proprietary/No Tech Data/ Notes 1. Per share information is presented on a fully diluted basis. 2. Rounded amounts used. 3. Impact to income taxes is calculated by recasting income before income taxes to include the items involved in determining adjusted income and recalculating the income tax provision using this adjusted income from operations before income taxes. The recalculation also adjusts for any discrete tax expense or benefit related to the items. 4. All references in this presentation to the fourth quarter of fiscal 2025 and LTM Q4 FY25 are to the quarter ended June 27, 2025, and the four-quarter period ended June 27, 2025. All references in this presentation to the fourth quarter of fiscal 2024 and LTM Q4 FY24 are to the quarter ended June 28, 2024, and the four-quarter period ended June 28, 2024. 5. Earnings per share and Adjusted earnings per share is calculated using diluted shares whereas loss per share and adjusted loss per share is calculated using basic shares. There was no impact to the calculation of adjusted earnings per share as a result of this for the fourth quarter ended June 28, 2024. Adjusted EPS reconciliation 15 (In thousands, except per share data)(2) Q4 FY24 Q4 FY25 FY24 FY25 (Loss) income per share(1) ($0.19) $0.27 ($2.38) ($0.65) Net (Loss) Income ($10,777) $16,370 ($137,640) ($37,904) Other non-operating adjustments, net (217) (4,645) (592) (7,742) Amortization of intangible assets 11,311 10,275 47,661 42,849 Restructuring and other charges 6,781 (15) 26,170 7,216 Impairment of long-lived assets — — — — Acquisition, financing and other third party costs 1,400 2,126 4,370 6,638 Fair value adjustments from purchase accounting 178 131 710 617 Litigation and settlement expense, net 945 4,062 4,927 13,010 Stock-based and other non-cash compensation expense 10,650 4,165 41,257 38,273 Impact to income taxes(3) (7,033) (4,576) (26,621) (25,091) Adjusted income (loss) $13,238 $27,893 ($39,758) $37,866 Adjusted (loss) earnings per share(1)(5) $0.23 $0.47 ($0.69) $0.64 Weighted-average shares outstanding: Basic 57,974 58,924 57,738 58,746 Diluted 58,048 59,540 57,738 59,203


© Mercury Systems, Inc. /Mercury Proprietary/No Tech Data/ Notes 1. Rounded amounts used. 2. All references in this presentation to the fourth quarter of fiscal 2025 and LTM Q4 FY25 are to the quarter ended June 27, 2025, and the four- quarter period ended June 27, 2025. All references in this presentation to the fourth quarter of fiscal 2024 and LTM Q4 FY24 are to the quarter ended June 28, 2024, and the four- quarter period ended June 28, 2024. Adjusted EBITDA reconciliation 16 (In thousands)(1)(2) Q4 FY24 Q4 FY25 FY24 FY25 Net (loss) income ($10,777) $16,370 ($137,640) ($37,904) Other non-operating adjustments, net (217) (4,645) (592) (7,742) Interest expense, net 8,634 6,659 33,816 29,823 Income tax benefit (7,824) 2,447 (51,635) (12,520) Depreciation 10,080 9,694 40,369 39,178 Amortization of intangible assets 11,311 10,275 47,661 42,849 Restructuring and other charges 6,781 (15) 26,170 7,216 Impairment of long-lived assets — — — — Acquisition, financing and other third party costs 1,400 2,126 4,370 6,638 Fair value adjustments from purchase accounting 178 131 710 617 Litigation and settlement expense, net 945 4,062 4,927 13,010 Stock-based and other non-cash compensation expense 10,650 4,165 41,257 38,273 Adjusted EBITDA $31,161 $51,269 $9,413 $119,438


© Mercury Systems, Inc. /Mercury Proprietary/No Tech Data/ Notes 1. Rounded amounts used. Free cash flow reconciliation 17 (In thousands)(1) Q4 FY24 Q4 FY25 FY24 FY25 Cash provided by operating activities $71,761 $38,075 $60,382 $138,851 Purchases of property and equipment (10,348) (4,098) (34,291) (19,803) Free cash flow $61,413 $33,977 $26,091 $119,048