CPA for Doctors
The complete tax-strategy guide for physicians at every career stage, from residency to private practice, plus the specialist CPA firm that implements it for you.

Strategy calls with a physician-focused CPA
15+ years · licensed in Illinois · serving all 50 states
What a CPA for doctors actually does.
By Bryan Martin, CPA, Managing Partner and Founder of Taxstra · Last reviewed June 2026
A CPA for doctors is not just an accountant who happens to have physician clients. It is a tax strategist who understands that a physician's financial life looks nothing like a typical W-2 employee's: multiple income types, several states, an entity or two, and a marginal tax rate that makes every overlooked deduction expensive. This guide lays out how tax planning for doctors and physicians actually works, strategy by strategy, and where a specialist physician tax advisor changes the math.
We use doctors and physicians interchangeably throughout. Whether you came searching for an accountant for doctors, an accountant for physicians, a tax accountant for doctors, or simply tax advice for doctors, the underlying need is the same, and that is what this guide is built to answer.
Why doctors need a specialist.
A general accountant files your return accurately. A physician tax specialist structures the year so you stop overpaying.

Most CPAs understand W-2 income, standard deductions, and basic retirement contributions. That is not enough when you are a physician earning $300K to $600K across multiple income types, states, and entity structures. Accuracy is not the same as optimization.
Take multi-state locum filing. Work assignments in three to five states and each has different nexus rules, reciprocity agreements, and apportionment methods. A general CPA often files conservatively, meaning you overpay. A specialist allocates income by duty day, claims credit for taxes paid to other states, and uses reciprocity to eliminate duplicate liability. See the locum tenens tax guide.
Or S-Corp timing. 1099 income from locum, expert-witness work, or a private practice is subject to 15.3% self-employment tax up to the Social Security wage base ($184,500 in 2026), plus 2.9% Medicare above it and a 0.9% surtax over $200K. An S-Corp election keeps pass-through income above a reasonable salary out of SE tax entirely, if the election is filed on time and the salary is defensible.
Multi-state / locum
Files each state conservatively, misses credits
Allocates by duty day, claims other-state credits, applies reciprocity
1099 income
Reports on Schedule C, pays full SE tax
Tests S-Corp break-even, sets defensible reasonable comp
Real estate
Treats rental losses as passive and suspended
Unlocks REPS or the STR exception to offset physician income
Retirement
401(k) deferral and an IRA
Stacks Solo 401(k), cash balance, backdoor and mega backdoor Roth
Cadence
Once a year at filing
Year-round planning with quarterly check-ins
| Issue | Typical general CPA | Physician tax specialist |
|---|---|---|
| Multi-state / locum | Files each state conservatively, misses credits | Allocates by duty day, claims other-state credits, applies reciprocity |
| 1099 income | Reports on Schedule C, pays full SE tax | Tests S-Corp break-even, sets defensible reasonable comp |
| Real estate | Treats rental losses as passive and suspended | Unlocks REPS or the STR exception to offset physician income |
| Retirement | 401(k) deferral and an IRA | Stacks Solo 401(k), cash balance, backdoor and mega backdoor Roth |
| Cadence | Once a year at filing | Year-round planning with quarterly check-ins |
The right moves change as you grow.
The strategies that matter for a resident are not the ones that matter for a practice owner, and the cost of skipping the early ones compounds for decades.

Residency & Fellowship
Low-income years are a planning gift
Roth conversions while your bracket is low, and clean setup for any moonlighting income. Decisions here echo for 20+ years.

New Attending
The income jump that catches doctors off guard
Quarterly estimates, withholding fixes, HSA and retirement-plan stacking, and an early read on whether 1099 or side income justifies an entity. Good habits are cheap to build here.

Established Attending
High W-2 income with real-estate options
Mega backdoor Roth, deferred compensation, and real-estate strategies (the STR exception or REPS through a spouse) to offset a top-bracket salary that has few other levers.

Practice Owner / Partner
Entity, retirement, and QBI in one system
Reasonable-compensation strategy, the QBI deduction and its specialty-service limits, cash balance plans, the accountable plan, and the Augusta Rule, coordinated across the practice and your personal return.
Planning to retire early? See physician FIRE. Two doctors under one roof? See dual-physician tax planning.
W-2, 1099, or practice owner.

W-2 employed
Employed physicians
No self-employment tax to solve, so retirement and real estate are the levers: max the 401(k), capture the HSA, run the mega backdoor Roth, and offset W-2 income with real estate.

1099 / locum
Independent & locum
Where entity structure pays off: test the S-Corp break-even, stand up a Solo 401(k), capture deductions a W-2 cannot, and get multi-state locum filing right.

Practice owner
Owners & partners
The most degrees of freedom: reasonable compensation, QBI, an accountable plan, cash balance plans, and family employment, all coordinated at the entity level.
Go deeper: high W-2 earners · side income · QBI deduction · accountable plan · S-Corp election

Accounting for medical practices.
For practice owners, tax strategy is only half the picture. As healthcare CPAs and accountants for medical professionals, we also handle the day-to-day: medical practice accounting, monthly bookkeeping for doctors, financial statements, payroll, and the numbers that tell you whether the practice is actually healthy. Clean books are also what make every strategy below defensible: you cannot benchmark reasonable compensation or substantiate an accountable plan without them.
Whether you need a medical practice accountant for ongoing books, accounting services for your group, or help structuring a transition, we keep tax and accounting under one roof. See our medical practice accounting overview, or planning around a medical practice sale.
The complete strategy library.
The strategies we implement for doctors, grouped by category. None are tricks; each rests on a specific section of the tax code.
Entity & business structure

S-Corp Election for 1099 Physicians
If you earn 1099 income, an S-Corp election under IRC Section 1362 can cut your self-employment tax. The entity pays you a reasonable W-2 salary, and profit above it passes through free of the 15.3% SE tax. The pitfall is reasonable compensation: too low invites reclassification, too high erases the benefit, so we benchmark and run real payroll. Compare the structures in our W-2 vs. S-Corp breakdown.
S-Corp electionQBI Deduction (Section 199A)
Medicine is a specified service trade or business, so the 20% qualified business income deduction phases out for practice owners above the income thresholds. That does not always mean it is lost: entity structure, retirement contributions, and taxable-income management can keep some of it in play.
Physician QBI deductionAccountable Plan & Hiring Family
An accountable plan lets your practice reimburse home-office, vehicle, and other business costs tax-free instead of you absorbing them. Employing a spouse or older children for real work can shift income to lower brackets and open retirement contributions, provided the wages are reasonable and documented.
Accountable planAugusta Rule for S-Corp Owners
Under IRC Section 280A(g), you can rent your personal residence to your S-Corp for up to 14 days a year, tax-free to you and deductible to the corporation. For physician owners this creates $5K to $15K in annual savings. We document fair-market rent and the agreement so it holds up under audit.
Owner strategiesRetirement & wealth stacking

Backdoor & Mega Backdoor Roth
Physicians above the Roth income limits (in 2026, $153K to $168K single, $242K to $252K married filing jointly) can still contribute through the backdoor Roth. If the employer plan allows after-tax contributions and in-service distributions, the mega backdoor Roth shelters up to $47,500 more per year. The pitfall is the pro-rata rule: pre-tax IRA balances make the conversion taxable, so we clear the runway first.
Physician tax planSolo 401(k), Cash Balance & DB Plans
1099 and practice income supports far more than a basic 401(k). A Solo 401(k) captures employee deferrals and employer profit-sharing, and a cash balance or defined benefit plan layered on top can shelter substantial additional income for higher-earning physicians. The exact capacity is actuarially determined by age and income.
Physician retirement plansHSA, the triple-tax-advantaged account
On an HSA-qualified high-deductible plan, the HSA is the only account that is deductible going in, tax-free as it grows, and tax-free coming out for medical costs. Invested rather than spent, it becomes a stealth retirement account. Small relative to a physician income, but pure efficiency and frequently left on the table.
Real estate offsets

REPS (Physician Spouse Strategy)
Real Estate Professional Status lets rental losses offset active income, but the 750-hour and more-than-half tests under IRC Section 469(c)(7) make it impractical for practicing physicians. The strategy: your spouse qualifies while you focus on medicine. Combined with cost segregation this can generate $80K to $200K in Year 1 deductions, defended by contemporaneous time logs and a sound grouping election.
Real estate for physiciansSTR Loophole for W-2 Offset
Short-term rentals (average stay of 7 days or fewer) are exempt from passive rules under Treas. Reg. 1.469-1T(e)(3). Materially participate and the losses flow against your W-2 income, no REPS required. With a cost segregation study this can unlock $50K to $150K in first-year bonus depreciation. The test is participation: commonly 100+ hours and more than anyone else, or 500+ hours, with records to prove it.
STR strategyCost Segregation
Cost segregation reclassifies building components from 27.5 or 39-year schedules to 5, 7, or 15-year schedules, accelerating depreciation into the current year. On a $650K rental, a study typically identifies $130K to $200K. Paired with REPS or the STR exception, these paper losses offset physician income dollar for dollar.
Physician tax deductionsIncome & compliance
Locum Tenens Multi-State Optimization
Locum physicians often file in three to eight states a year. We track your presence in each jurisdiction, apply allocation rules, claim credits for taxes paid to non-resident states, and advise on tax-home establishment to protect your travel deductions under IRC Section 162.
Tax home for locumsQuarterly Estimates & Asset Protection
1099 and practice income means quarterly estimated taxes; miss the safe harbor and you pay penalties on top of the tax. We keep estimates accurate as income shifts. Separately, entity and asset-protection structuring keeps a high-liability profession's exposure appropriately separated.
Estimated taxesBuilt to be defensible.

Every strategy here is aggressive only in the sense that most CPAs never raise it, not in the sense that it bends the rules. Each rests on a specific section of the code and lives or dies on its documentation. The difference between a deduction that saves you money and one that unravels under examination is almost always the paper trail.
- S-Corp reasonable comp: specialty- and region-specific benchmarking, real payroll, and a written rationale.
- REPS & material participation: contemporaneous time logs by activity and a defensible grouping election.
- Augusta Rule: fair-market rent support, a written rental agreement, and minutes showing legitimate use.
- Travel & home office: a documented tax home and records that tie expenses to specific assignments.
- Multi-state allocation: duty-day records that support how income was apportioned across states.
We do not chase positions that cannot survive scrutiny. The goal is durable savings that stay saved, not a number that looks good on this year's return and unwinds on the next.
How the strategies stack.
Leverage comes from layering. These are illustrative composites, not actual clients; dollar outcomes depend entirely on the facts.

Illustrative
Locum hospitalist, ~$400K 1099
S-Corp election with documented reasonable comp, Solo 401(k) on the entity, multi-state duty-day allocation, and a spousal REPS plus cost-seg position to offset income.

Illustrative
Dual-physician W-2 couple
Mega backdoor Roth on both plans, an HSA each, a short-term rental for material-participation offset, and retirement plus real-estate moves coordinated across both incomes.

Illustrative
Practice-owner surgeon
Reasonable-comp strategy, QBI analysis, a cash balance plan layered over the 401(k), an accountable plan, and the Augusta Rule, coordinated across the entity and personal return.
Common, expensive mistakes.
Treating the CPA as a once-a-year filer. Almost every strategy here must be in motion before December 31. A return prepared in April only reports what already happened.
Electing S-Corp too early, or too late. With little profit above reasonable comp, the payroll and compliance cost can exceed the SE-tax savings. With lots of 1099 income and no election, you overpay.
Setting an indefensible reasonable salary. Too low invites IRS reclassification; too high erases the benefit. Specialty- and region-specific benchmarking matters.
Letting rental losses sit suspended. Without REPS or the STR exception, real-estate losses are passive and cannot touch your physician income, a missed offset many doctors never realize they had.
Missing quarterly estimates on 1099 income. The penalty is avoidable with simple safe-harbor planning.
Ignoring the mega backdoor Roth. Many physician employer plans allow it, and most physicians never ask.
Filing multi-state locum returns conservatively. Failing to claim other-state credits or allocate by duty day means paying twice on the same dollar.
The physician tax year, quarter by quarter.
Tax planning for doctors is a cadence, not a spring event.
Q1 (Jan to Mar)
File the prior year, make prior-year IRA and HSA contributions before the deadline, confirm the first quarterly estimate, and finalize any retroactive S-Corp election.
Q2 (Apr to Jun)
Mid-year reasonable-comp and payroll review, check that REPS and STR hour logs are current, send the second quarterly estimate, and revisit entity setup.
Q3 (Jul to Sep)
Project full-year income, adjust estimates and withholding, and plan cost-segregation studies and property acquisitions while there is runway to execute.
Q4 (Oct to Dec)
The decisive quarter: fund retirement plans, execute the backdoor and mega backdoor Roth, document the Augusta Rule, and finalize entity and real-estate moves before the year closes.
From filing to planning.
Strategy Call
A free 30-minute call to understand your situation and see if we are a good fit. No obligation.
Deep Dive
We analyze your prior two years of returns to find missed deductions, entity opportunities, and compliance gaps.
Custom Tax Plan
A written plan with prioritized strategies, elections, and action items, plus the filings to put them in place.
Year-Round Execution
We handle the filings, run the entity and payroll, and keep the plan current as your income and life change.
Meet your physician CPA.

Bryan Martin, CPA, MBA
Founder & Managing Partner, Taxstra
Taxstra was founded by Bryan Martin, CPA, MBA, Founder and Managing Partner. Bryan is a Certified Public Accountant licensed in Illinois with over 15 years in accounting, and holds an MBA. His practice focuses on what matters most to high-income physicians: tax planning, S-Corporation optimization, real estate taxation, cost segregation, and physician-specific strategy.
Taxstra is a modern CPA firm based in Springfield, Illinois, serving doctors and high-income professionals nationwide, with 1,500+ clients across physicians, real estate investors, and high-income households. We have been featured on The White Coat Investor and are active in the BiggerPockets community.
Learn more on our about page, or book a free 30-minute strategy call.
Physician tax terms, defined.
- Reasonable compensation
- The defensible W-2 salary an S-Corp owner must pay themselves before taking the rest as pass-through profit; benchmarked to specialty and region.
- REPS (Real Estate Professional Status)
- An IRC §469(c)(7) status that turns rental losses non-passive so they can offset active income; requires 750+ hours and more time in real estate than your main job.
- STR exception
- The short-term-rental rule (average stay of 7 days or fewer plus material participation) that makes rental losses non-passive without REPS, often the realistic route for a busy physician.
- Cost segregation
- An engineering study that reclassifies building components into shorter depreciation lives, accelerating deductions into the current year.
- QBI / Section 199A
- A potential 20% deduction on qualified business income; medicine is a specified service business, so it phases out above income thresholds.
- Accountable plan
- A formal policy letting a practice reimburse owners and employees for business expenses tax-free, rather than absorbing them personally.
- Augusta Rule (§280A(g))
- Renting your home to your business for up to 14 days a year, tax-free to you and deductible to the entity, when properly documented.
Frequently asked questions.
Do I need a CPA for doctors, or will any accountant do?
Any licensed CPA can file an accurate return, but most general accountants are built for W-2 employees and small businesses, not for a physician earning across W-2, 1099, and entity income in multiple states. A CPA for doctors knows the elections and strategies that actually move a physician’s tax bill: S-Corp timing on 1099 income, multi-state locum filing, Real Estate Professional Status, and retirement-plan stacking. Accuracy is the floor; optimization is the point.
What is the difference between an "accountant for doctors" and a physician CPA?
In practice the terms are used interchangeably, but the meaningful difference is compliance versus strategy. A general accountant for doctors records what already happened and files it correctly. A physician tax specialist structures your income, entities, and investments before the year closes to lower your lifetime tax burden, modeling locum contracts, REPS qualification, and the specific IRS rules that apply to medical professionals.
Do you work with physicians and doctors in all 50 states?
Yes. We serve doctors across all 50 states and handle multi-state filing for locum tenens physicians who practice in multiple jurisdictions. Our team understands state-specific nexus rules, reciprocity agreements, and apportionment methods that affect your tax liability in each state you work.
Can you help with multi-state filing for locum tenens?
Absolutely. Multi-state filing is one of our core specialties. We track your days worked in each state, apply reciprocity agreements where available, allocate income using each state’s apportionment rules, and ensure you receive proper credit on your resident return to avoid double taxation.
Do you handle both personal and business entity taxes?
Yes. We prepare and file personal returns (Form 1040), S-Corp returns (Form 1120-S), partnership returns (Form 1065), and any related state filings. We also handle payroll tax compliance, quarterly estimated payments, and entity formation so everything stays coordinated under one strategy.
Do you offer accounting and bookkeeping for medical practices, or only tax?
Both. Alongside tax planning, we provide medical practice accounting and monthly bookkeeping for doctors: financial statements, payroll, and reporting, so your books and tax strategy stay under one roof. Accurate books are also what make strategies like reasonable compensation and the accountable plan defensible.
What does a healthcare CPA do for physicians?
A healthcare CPA combines tax strategy with the accounting side of medicine: entity structure, reasonable compensation, retirement-plan design, real-estate offsets, and multi-state filing on the tax side, plus practice bookkeeping, payroll, and financial reporting on the accounting side. The value is a single advisor who understands how a physician earns, spends, and is taxed, rather than a generalist who sees only the return.
I am a W-2 employed physician with no 1099 income. Is there anything to optimize?
Yes. Even without 1099 income, W-2 physicians can stack an HSA, capture the mega backdoor Roth if the employer plan allows after-tax contributions and in-service distributions, optimize deferred-compensation elections, and use real-estate strategies (the short-term-rental material-participation exception, or REPS through a spouse) to offset W-2 income. The biggest W-2 lever is usually retirement-plan and real-estate coordination rather than entity structure.
When does an S-Corp actually make sense for a physician?
An S-Corp only helps once you have meaningful 1099 net income (locum, expert witness, consulting, or a private practice) above a defensible reasonable salary. The savings come from avoiding self-employment tax on the pass-through portion above that salary, so the math depends entirely on how much profit sits above reasonable compensation, not on revenue. For purely W-2 physicians, an S-Corp does nothing. We run the break-even before recommending it.
What tax savings can physicians typically expect?
It depends on your income level, current structure, and how much of your income is 1099 versus W-2. For physicians with significant 1099 income, an S-Corp election cuts self-employment tax, and the entity unlocks larger retirement and deduction strategies. When combined with real estate strategies like REPS and cost segregation, total savings can be substantial. Because the variables are so individual, we do not quote a savings number before we have done the work; we identify the opportunities first.
Do you work with residents and fellows?
Yes. We work with physicians at every career stage. For residents and fellows, we focus on Roth conversions during lower-income years and early, clean setup for any moonlighting or side income, so you are positioned for larger savings the moment you become an attending.
We are a dual-physician couple. Does that change the strategy?
Significantly. Two physician incomes push you deep into the top brackets and the additional Medicare surtax, and they multiply the retirement and real-estate decisions that have to be coordinated. We model the household as a single system, sequencing entity, retirement, and real-estate moves across both careers rather than treating them as two separate returns.
Can you help if I have a side gig, moonlighting, expert witness, or consulting?
Yes, and side income is often where the easiest wins are. 1099 moonlighting, expert-witness work, telehealth, medical directorships, and content or consulting income can support an entity, a Solo 401(k), and a slate of business deductions that W-2 income alone cannot. We structure the side gig so it pays for retirement and lowers your effective rate at the same time.
How is the short-term rental "loophole" different from REPS?
Both let real-estate losses offset your physician income, but they qualify differently. REPS requires 750+ hours and more time in real estate than in medicine, usually only practical for a non-physician spouse. The short-term-rental exception does not require REPS at all: if the average guest stay is 7 days or fewer and you materially participate, the activity is treated as non-passive, so the losses flow against your W-2 or 1099 income. Many physicians qualify for the STR route when REPS is out of reach.
How does the initial consultation work?
Book a free 30-minute call through our website. We review your current income sources, entity structure, and tax situation, and you walk away with a clear picture of the opportunities we see and recommended next steps. No obligation, no sales pressure. Most physicians know within 15 minutes whether we are the right fit.
What information do I need for our first meeting?
Bring your most recent tax return (Form 1040 and any business returns), a summary of your income sources (W-2, 1099-NEC, 1099-MISC), current entity documents (if applicable), and details on any real estate holdings. The more context you provide upfront, the more specific our recommendations will be.
Can you do prior-year planning, or is it too late once the year ends?
Some strategies must be in place before year-end (most retirement contributions, the Augusta Rule, intra-year entity moves), but several can still be captured afterward: late S-Corp elections under IRS relief procedures, cost-segregation studies and bonus depreciation claimed via an accounting-method change, IRA and HSA contributions up to the filing deadline, and amended returns where a clear opportunity was missed. The sooner we look, the more remains on the table.
Do I have to be local to Springfield, Illinois to work with you?
No. We are based in Springfield, Illinois and work with physicians and doctors nationwide, so whether you are searching for a "CPA for physicians near me" or simply the right specialist regardless of location, we can help. Onboarding, planning sessions, and document exchange all happen remotely, and we coordinate multi-state filings regardless of where you live or take assignments.
How much does a physician CPA cost?
Fees depend on the complexity of your situation: number of entities, states, real-estate holdings, and the depth of planning involved. Rather than quote a generic number, we scope your engagement on the discovery call so you see exactly what is included before deciding. The goal is for the strategy to be worth a multiple of the fee.
What happens if the IRS questions one of these strategies?
Every strategy we implement is built to be documented and defensible from day one: reasonable-compensation benchmarking for S-Corps, hour logs for REPS and material participation, fair-market rent support for the Augusta Rule, and contemporaneous records for travel and home-office deductions. We do not chase aggressive positions that cannot survive scrutiny; the goal is durable savings, not a number that unwinds under audit.
Physician tax resources.
Physician Tax Planning Playbook
A step-by-step guide to entity selection, deduction strategies, and retirement planning for physicians at every career stage.
Locum Tenens Tax Guide
Everything locum tenens physicians need on 1099 taxes, travel deductions, multi-state filing, and S-Corp election.
Physician Tax Deductions
The complete list of deductions available to physicians, from CME expenses to home office and retirement contributions.
S-Corp Election for Physicians
When the S-Corp election pays off for 1099 physicians, how reasonable compensation works, and how to file Form 2553 on time.
Physician Retirement Plans
Solo 401(k), cash balance and defined benefit plans, backdoor and mega backdoor Roth, on a physician income.
Real Estate Investing for Physicians
How doctors use REPS, the short-term rental exception, and cost segregation to offset high W-2 and 1099 income.
W-2 Physician Tax Planning
Strategies for employed physicians with no 1099 income: HSA, mega backdoor Roth, deferred comp, and real-estate offsets.
QBI Deduction (Section 199A)
When physician practice owners qualify for the 20% qualified business income deduction, and how the specialty-service limits apply.
Resident & Fellow Tax Planning
Early-career moves that compound: Roth conversions in low-income years and setting up moonlighting income correctly.
Physician Tax Savings Calculator
Estimate the impact of an S-Corp election and entity optimization on your physician income.
Bookkeeping for Doctors
Monthly medical practice accounting, financial statements, and payroll that keep your strategy defensible.
S-Corp Savings Calculator
Model reasonable compensation and the self-employment tax you could save by electing S-Corp status.
Ready tostop overpaying?
Book a free 30-minute strategy call. We will review your situation and give you actionable next steps. No pressure, no obligation.

