Boston, Massachusetts

Tax & Accounting Services for Boston Tech Startups

Specialized tax planning, R&D credits, and CFO services for venture-backed startups in Boston, Cambridge, and the Greater Boston area. Navigate Massachusetts's complex tax landscape while maximizing federal and state R&D credits. Serving biotech, AI, SaaS, and fintech innovators.

4,500+
Tech Startups
$14M
Avg. Series A
8%
MA Corporate Tax
10%
MA R&D Credit

Why Boston Startups Choose SpryTax

Boston's innovation ecosystem—from MIT and Harvard spin-outs to world-class biotech and AI companies—demands sophisticated tax expertise. Massachusetts has complex tax rules, but also offers generous R&D credits. We help Boston startups navigate this landscape and maximize savings.

Massachusetts R&D Tax Credits

Massachusetts offers both federal (20%) and state (10% refundable) R&D credits. Boston biotech and AI startups average $250K-$600K in combined annual credits. MA's refundable credit provides cash back even for pre-revenue companies—a huge advantage.

  • 20% federal + 10% MA refundable R&D credits
  • Biotech and life sciences qualification
  • AI/ML algorithm development credits

Biotech & Life Sciences Expertise

Boston is the global biotech capital. We understand FDA approval accounting, clinical trial cost capitalization, grant revenue recognition (NIH, SBIR), and the unique R&D credit opportunities for life sciences companies.

  • Clinical trial and research accounting
  • NIH/SBIR grant revenue recognition
  • FDA milestone accounting

Massachusetts Tax Compliance

Massachusetts has an 8% corporate excise tax, complex apportionment rules, and aggressive enforcement. We navigate MA DOR compliance, combined reporting, and multi-state taxation to minimize your tax burden legally.

  • MA corporate excise tax optimization
  • Apportionment and nexus planning
  • Sales tax compliance (6.25% rate)

VC & University Ecosystem

Boston VCs (Atlas Venture, General Catalyst, Matrix Partners) and university tech transfer offices have high expectations. We deliver institutional-grade financials that support fundraising and licensing deals.

  • Monthly GAAP-compliant financials
  • IP licensing revenue recognition
  • Board-ready reporting packages

Delaware + MA Compliance

Like other startup hubs, most Boston companies incorporate in Delaware. We expertly manage dual-state compliance, ensuring you meet both Delaware franchise tax and Massachusetts corporate excise tax requirements.

  • Delaware franchise tax optimization
  • MA foreign corporation registration
  • Annual compliance calendar management

Stock Options & QSBS Planning

Massachusetts recognizes QSBS, allowing up to $10M in tax-free federal gains on exit (though MA still taxes at 5% on personal income). We provide 409A valuations and ensure your equity structure qualifies for maximum tax benefits.

  • 409A valuations for option grants
  • QSBS planning (federal tax-free exit)
  • ISO/NSO grant structuring

Boston Tax Challenges We Solve

Complex MA Tax Apportionment

Massachusetts uses a single-sales factor apportionment formula, which can be beneficial or detrimental depending on where your customers are located. For SaaS companies, determining "sales sourcing" for MA purposes is particularly complex.

Our Solution:

  • • Single-sales factor apportionment optimization
  • • Market-based sourcing analysis for services
  • • Multi-state nexus and income allocation
  • • Quarterly estimated tax planning

Biotech R&D Credit Complexity

Life sciences R&D credits require careful documentation of qualified research activities, clinical trial expenses, and FDA compliance costs. Massachusetts DOR audits biotech credits more aggressively than software credits.

Our Solution:

  • • Clinical trial expense documentation and tracking
  • • Four-part test compliance for biotech activities
  • • Contemporary documentation best practices
  • • MA DOR audit defense and support

University IP & Licensing Issues

Many Boston startups license IP from MIT, Harvard, or other universities. These agreements create complex revenue recognition issues, royalty payment obligations, and tax considerations that require specialized accounting expertise.

Our Solution:

  • • IP licensing revenue recognition (ASC 606)
  • • Royalty payment accounting and tracking
  • • Equity-for-IP transaction structuring
  • • R&D collaboration agreement accounting

High Personal Income Tax Impact

Massachusetts has a 9% "millionaire's tax" on income over $1M (in addition to the base 5% rate). This impacts founder compensation, stock option exercises, and exit planning. Strategic timing and structure can significantly reduce personal tax burdens.

Our Solution:

  • • Founder compensation tax optimization
  • • Stock option exercise timing strategies
  • • QSBS planning for federal tax-free gains
  • • Exit year tax planning and domicile analysis

Serving Tech Startups Across Greater Boston

From Kendall Square biotech labs to Seaport District SaaS companies and Cambridge AI startups, we serve innovative companies throughout the Boston metropolitan area.

Kendall Square

Back Bay

Seaport District

Cambridge

Financial District

Somerville

Also serving the Greater Boston Metro:

Cambridge

Kendall Sq, MIT, Harvard Innovation Lab

Somerville

Assembly Row, Union Square, Davis Square

Brookline

Coolidge Corner, Longwood Medical

Waltham/128

Route 128 tech corridor, Waltham

CLIENT SUCCESS STORY

Kendall Square Biotech Saves $380K Through R&D Credits & Tax Planning

The Challenge:

A 25-person biotech startup in Kendall Square (Cambridge) had an accountant who didn't understand life sciences R&D credits, missed the MA refundable credit entirely, and couldn't properly account for their NIH SBIR grant or MIT licensing agreement. They needed better financials to support Series A fundraising.

Our Solution:

  • Completed biotech R&D credit study: $240K federal + $85K MA refundable credits claimed
  • Properly accounted for $500K NIH SBIR Phase II grant revenue
  • Set up IP licensing accounting for MIT royalty payments
  • Implemented clinical trial cost tracking and capitalization
  • Created investor-ready monthly financials and KPI dashboard

Results:

$380K
First year tax savings + credits
Series A
Raised $18M from Atlas Venture

"SpryTax's biotech expertise is unmatched. They found R&D credits our prior accountant missed, got us cash back from the MA refundable credit, and delivered the financial sophistication our Series A investors required." - CEO & Co-Founder

Our Services for Boston Startups

Tax Planning & Filing

  • • Federal and MA corporate excise tax returns
  • • Multi-state tax compliance and apportionment
  • • Sales tax registration and filing (MA 6.25%)
  • • Quarterly estimated tax calculations
  • • QSBS and exit tax planning strategies
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R&D Tax Credits

  • • Federal R&D credit (20% of qualified expenses)
  • • MA refundable R&D credit (10% - cash back)
  • • Biotech and life sciences R&D qualification
  • • AI/ML algorithm development credits
  • • Retroactive claims and audit defense
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Biotech & Life Sciences Accounting

  • • Monthly GAAP-compliant financial statements
  • • Clinical trial cost tracking and capitalization
  • • NIH/SBIR grant revenue recognition
  • • FDA milestone accounting
  • • IP licensing revenue recognition (ASC 606)
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CFO Services

  • • Fundraising financial modeling and projections
  • • Board presentation deck preparation
  • • Strategic tax planning for M&A and exits
  • • Cap table management and dilution analysis
  • • Due diligence coordination and support
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Equity & 409A Valuations

  • • IRS-compliant 409A valuations for stock options
  • • ISO and NSO grant structuring and planning
  • • QSBS qualification planning for tax-free exits
  • • 83(b) election preparation and filing
  • • ASC 718 equity compensation accounting
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Massachusetts Payroll

  • • MA payroll tax compliance and withholding
  • • Multi-state payroll setup (all 50 states)
  • • Remote employee tax compliance
  • • Paid Family Medical Leave (PFML) compliance
  • • W-2, 1099, and annual reporting
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Ready to maximize your Boston startup's R&D credits?

Join 90+ Boston startups saving an average of $250K+ annually through federal and MA R&D credits and strategic tax planning. Get a free consultation to discover your savings potential.

Frequently Asked Questions

How does Massachusetts's R&D tax credit work?

Massachusetts offers a 10% refundable R&D credit on qualified research expenses that exceed a base amount. "Refundable" means you get cash back even if you have no tax liability—huge for pre-revenue startups. Combined with the 20% federal credit, Boston tech companies can claim up to 30% of R&D costs. Biotech, software, and AI development all typically qualify.

What is Massachusetts's corporate excise tax?

Massachusetts charges an 8% corporate excise tax on income apportioned to MA, plus a minimum tax based on tangible property or net worth ($456 minimum). MA uses single-sales factor apportionment, so your tax depends on where your customers are located. We help optimize apportionment and minimize MA tax liability through strategic planning.

Do biotech companies get special R&D credit treatment?

Biotech and life sciences companies can claim R&D credits on qualified research activities including clinical trials, FDA compliance work, and drug development. However, documentation requirements are stricter. You must show the research meets the "four-part test" (technical uncertainty, experimentation, technological in nature, qualified purpose). We specialize in biotech R&D credit documentation and audit defense.

How do I handle NIH grants and SBIR funding from an accounting perspective?

NIH grants and SBIR awards are recognized as revenue when milestones are achieved or costs are incurred (depending on grant terms). Proper accounting requires tracking allowable costs, indirect cost rates, and milestone completion. We have extensive experience with government grant accounting and can ensure compliance with federal requirements.

Does Massachusetts recognize QSBS for tax-free exits?

Massachusetts recognizes QSBS for federal purposes (up to $10M tax-free), but MA still taxes capital gains at the 5% personal income rate (or 9% if over $1M). However, saving 15-20% on federal taxes is still massive. We help structure your equity from day one to qualify for QSBS and coordinate timing strategies to minimize MA personal income tax on exits.