Tax Deductions — Medical Practices

Tax Deductions for Medical Practices: What Your CPA Is Missing

Most medical practices businesses overpay by tens of thousands every year. Here are the deductions, credits, and strategies that get overlooked.

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Most-Missed Deduction
#1 Missed Deduction

Defined Benefit Plan (DB Plan)

High-income physicians max out their 401(k) and think retirement planning is done. A defined benefit plan allows $200K-$300K+ in additional annual tax-deductible contributions based on age and income. Combined with a 401(k), total shelter can exceed $350K/year. For a physician in the 40% combined bracket, that is $140K+ in annual tax reduction from one strategy alone.

Most CPAs only set up 401(k) plans and don't have the expertise to design and administer defined benefit plans. DB plans require actuarial calculations and annual compliance, so they fall outside the typical CPA's service offering.

$80,000-$140,000/year in tax reduction for physician-owners over 40

Medical Practices Deductions

Top Missed Deductions

Every one of these applies to medical practices businesses. If you're not claiming them all, you're overpaying.

01

Defined Benefit Plan Contributions

Shelter $200,000-$300,000+ per year in tax-deductible retirement contributions. Far exceeds 401(k) limits ($23,500 employee + $46,000 employer in 2025). Can be layered with a cash balance plan for combined shelter exceeding $350,000 annually.

$80,000-$120,000 in annual tax reduction
02

Medical Equipment Immediate Expensing

Section 179 ($2.5M limit) and 100% bonus depreciation allow full first-year write-off of diagnostic equipment, imaging machines, EHR systems, and treatment devices instead of 5-7 year depreciation.

$50,000-$200,000 in first-year deductions per major purchase
03

Practice Real Estate Separation

Own your medical office through a separate LLC that leases to the practice. Creates a deductible lease expense for the practice, protects real estate from malpractice claims, and allows independent depreciation strategies including cost segregation.

$30,000-$80,000/year in combined tax benefits
04

Cost Segregation on Medical Offices

Medical offices have extensive qualifying components: medical gas systems, lead shielding for imaging, specialized HVAC for infection control, heavy-duty electrical, and ADA infrastructure. Reclassify from 39-year to 5/7/15-year property.

$100,000-$200,000 in first-year deductions on a $1M+ facility
05

Accountable Plan for Unreimbursed Expenses

S-Corp medical practices can establish an accountable plan to reimburse physician-owners for home office, cell phone, internet, professional dues, continuing education, and vehicle expenses tax-free.

$15,000-$40,000/year in deductions
06

SECURE 2.0 Roth Catch-Up Requirement Planning

High-income owners (over $145K) now must make catch-up contributions on a Roth basis. Strategic planning around the base contribution vs. catch-up split, and timing of income recognition, can optimize the tax impact.

Varies based on contribution strategy
07

Augusta Rule (Section 280A) for Practice Meetings

Rent your home to your practice for up to 14 days per year for staff meetings, retreats, and planning sessions at fair market rental rates. Income is tax-free to you personally; expense is deductible by the practice.

$15,000-$30,000/year
08

Qualified Small Employer Health Reimbursement Arrangement (QSEHRA)

Practices with fewer than 50 employees can reimburse employees for individual health insurance premiums and medical expenses tax-free. Deductible to the practice, tax-free to employees.

$10,000-$30,000/year in combined tax benefits
09

Student Loan Repayment as Tax-Free Benefit

Employers can provide up to $5,250/year in tax-free student loan repayment assistance per employee under Section 127. Particularly valuable for recruiting associate physicians and staff.

$5,250 per participating employee in tax-free benefits
Accelerated Depreciation

Section 179 & Bonus Depreciation

Write off qualifying equipment and assets in the year you buy them, instead of spreading deductions over decades.

Section 179 Limit
$2,560,000 (2026 limit)
First-Year Potential
$150,000-$500,000+ for practices investing in imaging or surgical equipment
Qualifying Assets for Medical Practices
Diagnostic imaging equipment (X-ray, MRI, CT, ultrasound)EHR/EMR systems and practice management softwarePatient monitoring equipmentSurgical instruments and laser systemsOffice furniture and exam room equipmentLab equipment and testing devicesVehicles used for house calls or between locationsTelehealth technology and infrastructure

Practices purchasing a $400K imaging system can deduct the entire amount in year one instead of depreciating over 5-7 years, generating $120K-$160K in immediate tax savings.

Learn more about bonus depreciation in 2026 →
Tax Credits

Credits You May Qualify For

Credits reduce your tax bill dollar-for-dollar. These are the ones most commonly left on the table in medical practices.

Work Opportunity Tax Credit (WOTC)

Credit for hiring from targeted groups including veterans and SNAP recipients.

Check Eligibility $2,400-$9,600 per qualifying hire

Small Business Health Care Tax Credit

Credit for small practices (fewer than 25 FTEs with average wages under $56,000) that provide health insurance through the SHOP marketplace.

Likely Eligible Up to 50% of premium costs for qualifying practices

Disabled Access Credit (Section 44)

Credit for making a practice accessible to patients with disabilities. Covers ramps, door modifications, accessible restrooms, and assistive technology.

Likely Eligible 50% of expenditures between $250 and $10,250 (max $5,000 credit)
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Entity Structuring

Entity Structure Impact

Recommended Structure
S-Corp for practice operations; separate LLCs for real estate and equipment leasing

S-Corp provides payroll tax savings through salary/distribution split while maintaining pass-through treatment for retirement plan optimization. Separate real estate LLC protects property from malpractice claims.

S-Corp

Critical for physician-owners. Reasonable salary + distributions save $30K-$60K+ in SE tax annually. Enables defined benefit plan with owner as primary beneficiary. QBI deduction available (though SSTB limitations apply at high income).

C-Corp

Can be used for fringe benefit planning (Section 105 medical reimbursement plan covering 100% of medical expenses tax-free). However, double taxation on distributions makes it suboptimal for most practices.

LLC

Best for real estate holding entity and equipment leasing entity. Avoid for the practice itself due to full SE tax exposure on net income.

Your Savings Potential

What Medical Practices Businesses Save

$100,000-$350,000 per year

For a $1M-$5M revenue medical practice. High-income physician-owners benefit disproportionately from defined benefit plans and entity structuring. Savings compound when real estate and equipment entities are properly separated.

For businesses doing $1M–$5M in revenue

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