18 Common Tax Mistakes Physicians Make – And How to Fix Them (Part 1)

March 1, 2026

Welcome to the latest episode of the Physician Cents Podcast, where we explore complex financial topics tailored specifically for physicians. Whether you're a medical student, resident, fellow, or attending physician, you're going to find valuable insights that can help you increase your financial IQ, further your financial journey, and improve your overall well-being. Hosted by Chad Chubb and Tyler Olson, let’s dive in! 

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18 Tax Mistakes Most Doctors Make – And How to Fix Them (Part 1)

Physicians are some of the highest earners in the country and some of the biggest overpayers in taxes. Not because you're bad with money, but because the tax code punishes complexity.

If your pay comes from more than one place (hospital, university, physician group, moonlighting, locums, consulting), it's easy for the pieces to stop talking to each other. That's when "I thought payroll handled it" turns into a five-figure April surprise. This first part of a three-part series covers five common errors that show up again and again, and what to do instead.

In this post, we cover mistakes #1 through #5 from Tyler's Tweet.

Why physicians overpay taxes when income gets complicated

A lot of tax pain isn't caused by "aggressive" moves or exotic strategies. It's more like an administrative paper cut that keeps happening.

Here's the typical setup:

  • You've got a W-2 from one employer (maybe a university or hospital).
  • You've got a second W-2 (common in academic settings where the medical school and physician group pay separately).
  • You also pick up 1099 income (consulting, locums, expert witness work, side gigs).
  • Then a bonus hits and it's withheld in a way that doesn't match your real tax rate.

Each payer does withholding in its own little bubble. None of them know what the others are doing unless you force coordination. Add high income into the mix, and the default systems (like the W-4 and bonus withholding rules) often come up short.

The theme you'll see in every mistake below: the tax bill is usually manageable, but the surprises and penalties are what make people angry.

Mistake #1: Not planning for multiple income types (W-2 + 1099 + bonuses)

When you have multiple income streams, the biggest issue is simple: withholding doesn't coordinate across sources.

Your university payroll system withholds based on the W-4 you gave them. Your physician group withholds based on the W-4 you gave them. Your 1099 client withholds… nothing. And bonuses follow their own rules.

The problem: withholding breaks in predictable ways

A few common traps show up for physicians:

  • Multiple W-2s don't "stack". Each employer withholds as if that paycheck is your only paycheck.
  • No withholding on 1099 income, unless you make estimated payments or adjust withholding elsewhere.
  • Bonuses often get withheld at a flat 22% by default, which can be too low for many physicians.
  • As a result, you get a big balance due later, and sometimes an underpayment penalty on top.

One misconception that refuses to die: bonuses aren't taxed differently than regular W-2 income. The issue is that the withholding on bonuses may be too low, so it feels like the bonus was taxed harder when you settle up at filing.

If you've ever thought, "Why did my bonus get destroyed by taxes?", the real answer is often, "It wasn't withheld enough up front."

What actually helps: coordinate early, then automate

Start by reviewing pay stubs earlier in the year, not in March when you're hunting for tax forms. If you know you've got W-2 income plus irregular 1099 income, you need a system that smooths payments throughout the year.

A simple move that can work well: estimate the tax on your 1099 income, then add extra withholding on your W-2 job to cover it. That way, your W-2 payroll becomes the "engine" that pays taxes steadily, even if the side income is lumpy.

A quick note on expectations: paying a basic tax prep fee to file a return usually doesn't include year-round tax planning. You may need separate planning time to get this dialed in.

Safe harbor rules that can prevent underpayment penalties

If underpayment penalties are showing up on your return, it's a signal your payments weren't paced correctly. Two common safe harbor targets were highlighted:

  • Pay 110% of last year's total tax (often the easiest number to target).
  • Or pay 90% of this year's total tax (harder, because it's a moving target).

Here is a practical "sweet spot": you don't want giant refunds, and you don't want giant bills. If you're within about plus or minus $1,000 at filing, you're usually pretty close to dialed in.

If you do need to make a payment, use the IRS tool that's built for it: IRS Direct Pay for individuals. It's straightforward, and it helps you keep clean documentation of what you paid and when.

Mistake #2: Staying a sole proprietor when an S-corp might make sense (or doing it too early)

The S-corp conversation is everywhere for physicians with side income. Sometimes it's helpful. Sometimes it's a headache with little payoff.

The key point is this: an S-corp is not a personality trait. It's math.

If you're earning enough 1099 income, staying a sole proprietor (Schedule C) can mean you're paying more self-employment tax than you need to. On the other hand, setting up an S-corp too early can backfire once you add payroll, additional tax filing, and extra professional fees.

What the S-corp is trying to fix

Self-employment tax is 15.3% in the U.S.:

  • 12.4% Social Security
  • 2.9% Medicare
  • Plus an additional 0.9% Medicare tax above certain income thresholds (the episode referenced $200,000 and $250,000 thresholds, with $125,000 for married filing separately)

The S-corp strategy typically aims to reduce the portion of income hit by self-employment tax by splitting income into salary (subject to payroll taxes) and distributions (not subject to the same payroll taxes).

That said, you still have to pay yourself a reasonable salary. If you're a radiologist doing teleradiology and decide your "reasonable" salary is $10,000, that may not pass the sniff test if the IRS ever looks.

Why it can backfire, even when it "sounds" smart

A few reasons this goes sideways:

  • You pay more in accounting and admin costs, because you've added payroll and another business return.
  • The tax savings might be small, especially after fees.
  • State rules can change everything.

If the S-corp saves you $2,300 and the additional costs are $2,000, you didn't really "win." You just bought yourself more complexity for $300.

The practical way to decide (without internet bravado)

A clean decision process looks like this:

  1. Estimate your annual 1099 income (and whether it's stable).
  2. Compare sole proprietor vs. S-corp tax outcomes.
  3. Subtract the real costs: payroll, additional filing, and your time.
  4. Check state business taxes that could reduce the benefit.

If the math works, great. If it doesn't, you're not "missing out." You're avoiding a setup that doesn't help.

Low-hanging deductions and payment mistakes physicians keep repeating

Some tax errors feel dramatic, like creating an entity. Others are quieter, like failing to track expenses or missing quarterly payments. The quiet ones are painful because they're so avoidable.

Mistake #3: Missing easy 1099 deductions because you didn't track them

This one is simple and brutal: physicians often have legitimate deductions tied to 1099 income, but they don't track them, so they never claim them.

Important limitation: these deductions apply to 1099 work. If you're only W-2, you generally can't deduct unreimbursed employee expenses on your federal return (rules changed years ago).

Common 1099 deductions that get missed

The episode called out examples many physicians recognize instantly:

  • CME expenses
  • Board fees
  • Licenses
  • Cell phone and internet (business-use portion)
  • Travel expenses tied to the 1099 work

Travel is where people get sloppy fast. Commuting from home to the hospital is not deductible. Mileage that can qualify is usually travel between work locations (for example, from a primary site to a satellite site).

There's also a home office angle. If you truly do work from home (teleradiology is a common example), then travel from that home office to other work sites may be treated differently. The key word is "truly." If you claim it, you need to be able to back it up.

Conferences can qualify too if the trip is primarily for business. If you go to a two-day conference and stay two weeks for vacation, you've got a mixed-purpose trip. Some parts may be deductible, others not.

One more simple rule we emphasized: if an employer reimburses you for an expense, don't deduct it.

For more examples of what tends to get overlooked, this write-up lines up with what many docs experience in real life: common 1099 deductions doctors miss.

The accountant relationship matters more than people expect

A surprisingly common complaint is, "My accountant sounds like they work for the IRS." What's usually happening is the accountant is protecting you, because they're signing the return and putting their reputation on the line.

If you want a second opinion on a gray area, that's fair. Still, hunting for someone willing to rubber-stamp fringe deductions is a good way to turn a small tax win into a big tax mess.

Mistake #4: Not paying quarterly estimated taxes on moonlighting or locums income

If you earn meaningful 1099 income, the IRS expects you to pay taxes during the year, not as one lump sum later.

This mistake shows up a lot with moonlighting, locums, and consulting. It also pops up when physicians assume a "practice accountant" is covering their personal situation, but the attention stays at the business level.

Underpayment penalties hurt, and they're avoidable

We referenced checking the underpayment penalty rate and seeing 7% at the time (it had been 8% before that). Either way, that's real money for doing nothing wrong other than paying late.

Even worse, you can pay your entire tax bill by April 15 and still get hit with penalties if the IRS decides you didn't pay enough throughout the year. Payment timing matters.

The big takeaway: you can't wait until January 15 and pretend you paid "quarterly." The IRS tracks payment dates.

Two practical fixes that reduce hassle

First option: make quarterly payments and put them on your calendar. You can pay using IRS Direct Pay for individuals (and your state portal, if your state has income tax and requires estimates).

Second option: if your 1099 income isn't huge, you can often increase withholding on your W-2 job instead, then let payroll handle the steady payments.

One operational detail we emphasized: when you pay at the IRS site, you must select the correct reason for the payment. A payment for "balance due" is not the same as a "2026 estimated payment." If you owe for last year and also need to make Q1 estimates, split it into two separate payments so the IRS applies it correctly.

We also mentioned a useful cleanup move: if you overpaid and are due a refund, you can sometimes apply that overpayment to the next year's estimated taxes, which can help if you're already behind on Q1 and Q2.

Backdoor Roth IRA mistakes physicians can avoid with one cleanup step

High-income physicians love the backdoor Roth IRA for a reason. It's one of the cleanest ways to get Roth money when your income is too high for a direct Roth IRA contribution.

It's also easy to mess up.

Mistake #5: Doing a Backdoor Roth IRA without fixing pre-tax IRA balances

The backdoor Roth process assumes you can contribute to a traditional IRA (non-deductible), then convert to Roth with little or no tax. The problem is the IRS pro rata rule.

If you have pre-tax money in any of these, the pro rata rule can cause a chunk of your conversion to be taxable:

  • Traditional IRA
  • Rollover IRA
  • SEP IRA
  • SIMPLE IRA

A simple pro rata example (with real numbers)

We gave a clean illustration:

  • You contribute $7,000 non-deductible to a traditional IRA (the 2025 limit).
  • You also have $63,000 in a SEP IRA that is pre-tax.
  • Total IRA money is now $70,000.

When you convert $7,000 to Roth, the IRS doesn't let you isolate just the non-deductible dollars. Instead, the conversion is treated proportionally:

  • $7,000 is 10% of $70,000
  • So only about 10% of your conversion is tax-free
  • The other 90% becomes taxable

That defeats the whole point for most people.

The common fix: move pre-tax IRAs into a 401(k) bucket

We highlighted the usual cleanup:

  1. Roll pre-tax IRA assets into your current employer plan, like a 401(k) or 403(b), if the plan accepts rollovers.
  2. If you're self-employed, you may be able to open a solo 401(k) and roll eligible IRA funds there.

The key point: money in 401(k), 403(b), or solo 401(k) accounts doesn't trigger the pro rata rule the same way IRA balances do.

We also mentioned a creative angle some physicians use: generating a small amount of legitimate 1099 income (like paid medical surveys), then using that to open a solo 401(k) so they can control the assets and clear the IRA issue. Whether that applies to you depends on your situation, but the concept is consistent: clean up the IRA balances before you convert.

If you're doing backdoor Roth contributions and you still have a rollover IRA sitting around from residency, the odds are high you're paying extra tax without realizing it.

Conclusion

Most physician tax mistakes aren't dramatic. They're quiet coordination problems: mismatched withholding, missed estimates, untracked 1099 deductions, and retirement moves that trip hidden rules. Clean up those basics and you usually stop the "surprise bill" cycle fast. In the next part of the series, the list continues with mistakes #6 through #12, and yes, there are more of these sneaky ones. The goal is simple: keep more of what you earn by avoiding the avoidable stuff.

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This information is for general purposes only. This information is not intended to be a substitute for specific professional financial, tax, or legal advice, as individual circumstances vary. Please see a financial professional, CPA, and/or an attorney in regards to your own individual situation.

Wealthkeel’s Advisory Services and Financial Planning offered through Vicus Capital, Inc., a Federally Registered Investment Advisor. WealthKeel LLC, 615 Channelside Drive, Suite 207, Tampa, FL 33602 -- 267.590.9533.

Olson Consulting LLC, Offering Advisory Services and Financial Planning, is a State-Registered Investment Advisor.

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