2025 Tax Savings for Small Business Owners: QBI and R&D Explained

The One Big Beautiful Bill Act (OBBBA) delivers major, owner-friendly updates for 2025 and beyond: a permanent 20% Qualified Business Income (QBI) deduction, revived R&D expensing, and 100% bonus depreciation. This guide explains who qualifies, how to stack deductions, and what to prepare before filing.
1) Why OBBBA Matters for Entrepreneurs
Many TCJA-era business breaks were set to sunset after 2025. OBBBA reduces uncertainty by making cornerstone incentives permanent and restoring deductions that fuel hiring and innovation. For small firms, freelancers, and LLC/LLP/S-Corp owners, that means clearer planning and larger, earlier cash-flow relief.
- Permanent: 20% QBI deduction on qualified pass-through income.
- Restored: Immediate expensing of domestic R&D costs (retroactive relief for small businesses).
- Accelerated: 100% bonus depreciation for short-lived property; special expensing for certain manufacturing builds.
2) QBI Deduction (Permanent)
The Qualified Business Income deduction (IRC §199A) lets eligible pass-through owners deduct up to 20% of qualified business income from taxable income. OBBBA makes this provision permanent and raises income phase-out thresholds, improving access for more owners.
| QBI Quick Facts | Details |
|---|---|
| Who qualifies? | Sole proprietors (Schedule C), partnerships, S corporations, and certain LLCs with qualified trade or business income. |
| Deduction amount | Up to 20% of qualified business income (subject to wage/asset tests at higher incomes). |
| Phase-outs | OBBBA raises thresholds (more room before limits apply). SSTBs still face limits at high incomes. |
| Planning idea | Use retirement contributions (SEP-IRA/Solo 401(k)) to keep AGI within full-benefit ranges. |
3) R&D Expensing (Retroactive & Ongoing)
OBBBA restores immediate expensing for domestic research and development costs, reversing the prior 5-year amortization. Small businesses (gross receipts ≤ about $31 million) can apply retroactive relief back to late 2021, while other domestic R&D from late 2021–early 2025 can be accelerated and deducted in one–two years.
- Qualifying activities: product design, prototypes, software testing, experimental process improvements, lab work.
- Documentation: time sheets, experiment logs, invoices, contractor agreements, test results.
4) Bonus Depreciation & Manufacturing Expensing
Short-lived property (e.g., machinery, computers, equipment) again qualifies for 100% bonus depreciation, allowing a full first-year deduction. OBBBA also provides temporary 100% expensing for qualifying manufacturing structures begun between Jan 19, 2025 and Jan 19, 2029 and placed in service by 2031.
5) How to Stack QBI + R&D
Use R&D expensing to reduce business income, then apply the 20% QBI deduction to the remaining amount for a layered benefit.
| Scenario | Amount |
|---|---|
| Business net income | $300,000 |
| Less: R&D expensing | ($50,000) |
| QBI base | $250,000 |
| QBI deduction (20%) | ($50,000) |
| Taxable income after both | $200,000 |
Depending on your bracket and state, this layered approach can translate to roughly $25k–$30k in federal savings versus pre-OBBBA treatment.
6) 2025 Filing Prep Checklist
- Catalog R&D work: project notes, time tracking, vendor invoices, prototype/testing logs.
- Review entity status: S-Corp/partnerships often maximize QBI; confirm reasonable compensation/wage tests.
- Track assets: keep invoices for equipment and any qualifying manufacturing build started after Jan 19, 2025.
- Model AGI: use retirement plans (SEP-IRA/Solo 401(k)) and health plans to stay within QBI full-benefit ranges.
- Coordinate early: meet your Enrolled Agent (EA) or CPA to stack deductions safely and document support.
Internal Links & External References
- The Ultimate Ethics Guide for Enrolled Agents: Understanding IRS Circular 230 in 2025
- 2025–2026 Tax Changes Explained: What Every Individual Taxpayer Should Know
- IRS — Qualified Business Income (Section 199A) FAQs
- IRS Publication 535 — Business Expenses (incl. R&D)
- Congress.gov — OBBBA Bill Text & Summaries
Disclaimer
This article is for general educational purposes and does not constitute tax or legal advice. For guidance tailored to your business, consult a licensed Enrolled Agent (EA) or tax professional.
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