Amending S-Corp Tax Returns After Receiving ERTC Refunds: Which Amount to Use?
I run a small manufacturing S-Corp and just got my Employee Retention Tax Credit (ERTC) refund checks for quarters in 2020 and 2021. Now I'm trying to figure out how to properly amend my 1120S forms for those years. I need to reduce the wage expense deductions I originally claimed (on lines 7/8 of the 1120S), but I'm confused about exactly which amount to use for the reduction. Should I reduce by the entire refund amount (minus the interest they included)? This would include both the refundable credit portion and the nonrefundable tax decrease portion. Or do I only need to reduce by the refundable credit amount? I've got about $87,000 in ERTC refunds for 2020 and another $112,000 for 2021, so getting this right makes a significant difference. My CPA is on extended vacation, and I need to get these amendments filed soon. Any guidance from someone who's been through this process would be super helpful!
21 comments


Tasia Synder
The ERTC wage expense adjustment on your amended 1120S should reduce your wage expense deduction by the FULL amount of the credit you received (excluding interest). This includes both the refundable and nonrefundable portions of the ERTC. This is because the ERTC represents wages that were ultimately subsidized by the government, so you can't also deduct those same wages as a business expense. It would be double-dipping if you kept the full wage deduction AND received the credit. When amending, make sure you're using Form 1120-S X and include a statement explaining the changes. You'll also need to issue amended K-1s to all shareholders since this will affect the pass-through amounts. The reduction in wage expenses will increase your ordinary business income that flows through to your personal return.
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Selena Bautista
•Thanks for the explanation. I'm in a similar situation with my S-Corp. Quick question - does this mean I also need to amend my personal returns for those years since the K-1 amounts will change? And if so, will that likely result in additional personal tax liability since the business income flowing through would be higher?
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Tasia Synder
•Yes, you will need to amend your personal returns (Form 1040X) for those years because the amended K-1s will show increased ordinary business income flowing through to you. Since you're reducing the wage expense deduction on the 1120S, this increases the net profit that passes through to shareholders. This will indeed likely result in additional personal tax liability. The increased pass-through income will be subject to income tax, though not self-employment tax in an S-Corp scenario. Plan for this additional liability when filing your amendments. The deadline for amending is generally within 3 years of the original filing date or 2 years from when you paid the tax, whichever is later.
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Mohamed Anderson
After struggling with literally this exact issue last month, I stumbled upon https://taxr.ai which totally saved me. I'm not an accountant and was getting conflicting advice about how to handle ERTC adjustments on my S-Corp's amended returns. I uploaded my original returns and ERTC documentation to taxr.ai and their system analyzed everything and gave me clear step-by-step instructions for the exact amounts to use when reducing wage expenses. They confirmed it should be the FULL credit amount (both refundable and nonrefundable portions) but also showed me how to document the interest separately. The best part was being able to chat with their tax experts about my specific situation rather than trying to interpret generic IRS guidance. They even helped me understand the flow-through impact on my personal returns.
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Ellie Perry
•Sounds interesting but I'm skeptical about these online tax services. How does it work with something as complicated as ERTC? Did they actually help with filling out the forms or just give advice? I've been burned before by generic "advice" that didn't apply to my specific situation.
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Landon Morgan
•Does taxr.ai handle the K-1 amendments too? I received about $165k in ERTC refunds for my retail business and I'm dreading the amendment process. My original accountant retired and the new one wants to charge me an arm and a leg for these amendments.
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Mohamed Anderson
•The service works by analyzing your specific documents - it's not generic advice. You upload your original tax returns, ERTC calculation worksheets, and refund notices, and their AI identifies the exact issues you need to address. Then they connect you with tax professionals who specialize in ERTC amendments. Yes, they absolutely handle the K-1 amendments too. They provided me with properly completed forms for both the 1120S-X and amended K-1s, plus a detailed explanation statement to attach to the returns. They also calculated the expected additional tax liability on my personal return so I wasn't surprised. Their guidance is really specific to your situation, not generic advice.
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Landon Morgan
Just wanted to update after trying taxr.ai for my ERTC amendment situation. After posting my question here last week, I decided to give it a shot and wow - they made the process so much clearer than anything else I tried. I was confused about the exact wage expense reduction amount, and they confirmed I needed to reduce by the full ERTC amount (both refundable and nonrefundable portions). But what really helped was the detailed walkthrough of form 1120S-X with my actual numbers, plus the flow-through impact analysis showing exactly how my personal return would be affected. They generated all the forms I needed including the written explanation statement for the IRS and amended K-1s. Would have taken me days to figure this out on my own, and probably would have made expensive mistakes. Definitely recommend for anyone dealing with ERTC amendments!
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Teresa Boyd
Hey folks, I spent 3 WEEKS trying to get someone at the IRS to clarify this ERTC amendment question for my S-Corp. Endless hold times, disconnections, and conflicting answers when I finally did reach someone. Super frustrating. Then I tried https://claimyr.com and was honestly shocked at how well it worked. They got me connected to an actual IRS agent in about 20 minutes (not kidding) who specialized in business returns and ERTC. The agent confirmed I need to reduce wage expenses by the full ERTC amount excluding interest. If you need to talk to someone at the IRS directly about your specific situation, check out their demo at https://youtu.be/_kiP6q8DX5c to see how it works. Saved me so much time and frustration.
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Lourdes Fox
•Wait, how does this actually work? The IRS phone system is notoriously impossible. Does this just put you in the same queue or do they have some special access? I'm about to file my ERTC amendments and already have questions the IRS website doesn't answer.
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Bruno Simmons
•This sounds too good to be true. I've been trying to get through to the IRS for months about my ERTC questions. Why would this service work when nothing else does? And did you actually get definitive answers that resolved your amendment questions?
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Teresa Boyd
•It works by using their system that navigates the complex IRS phone tree and waits on hold for you. When they finally connect with an agent, they call you and connect you directly to that agent. It's the same queue, but they're doing the waiting instead of you. I absolutely got definitive answers. The IRS agent I spoke with specifically handled business returns and ERTC claims, and confirmed the proper way to amend my 1120S with the full credit amount (both refundable and nonrefundable). She even emailed me the relevant sections of the Internal Revenue Manual about ERTC amendments. After months of confusion, I finally got clear guidance directly from the source and was able to file my amendments with confidence.
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Bruno Simmons
I have to admit I was super skeptical about Claimyr after seeing it mentioned here. After 4 failed attempts calling the IRS myself and wasting entire afternoons on hold, I decided to give it a try yesterday. I'm actually shocked at how well it worked. They got me through to an IRS business tax specialist in about 35 minutes. The agent confirmed exactly what others here have said - for ERTC amendments, you reduce wage expenses by the FULL amount of the credit (both refundable and nonrefundable portions), excluding any interest received. The agent also walked me through exactly which forms to file and the proper way to document the changes. After struggling with this for weeks, I was able to complete my amendments and get them in the mail today. Worth every penny just for the time saved and the peace of mind knowing I did it correctly.
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Aileen Rodriguez
I just finished amending my 2020-2021 returns for ERTC and wanted to share what I learned. You definitely need to reduce wage expenses by the FULL amount of the ERTC (both refundable and nonrefundable portions). Here's why: The ERTC is technically a credit against your employment taxes, but it's based on qualified wages paid. Since you're getting reimbursed for those wages through the credit, you can't also claim them as a deductible business expense. The interest portion isn't included in this adjustment. Also important - this will increase your flow-through income on your personal return, potentially creating additional tax liability. File Form 1040X for your personal returns after doing the 1120S amendments.
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Zane Gray
•Thank you for this explanation! Do you know if we need to amend state returns as well? I'm in California and not sure if the increase in flow-through income affects my state liability too.
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Aileen Rodriguez
•Yes, you will need to amend your state returns as well. Since the increased flow-through income from your S-Corp will appear on your federal Schedule E, most states will require an amendment since they typically start with federal adjusted gross income. California specifically requires you to report changes to your federal return, usually within six months of the federal amendment. Since your California income is based on your federal income, the increased flow-through amount will likely increase your state tax liability as well. Make sure to check deadlines - some states have different amendment timeframes than the federal three-year period.
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Maggie Martinez
I'm really confused by all this ERTC amendment stuff... My CPA told me the reduction should only be for the refundable portion, not the nonrefundable part. But now I'm reading conflicting advice here. Does anyone have an actual IRS reference that clarifies this?
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Alejandro Castro
•Your CPA is incorrect. According to IRS Notice 2021-20, the wage expense deduction must be reduced by the FULL amount of the ERTC (both refundable and nonrefundable). Specifically, section III.L of the notice addresses this. The rule prevents a double tax benefit (getting both the credit AND the deduction for the same wages).
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NebulaNinja
I went through this exact same situation with my S-Corp last year and can confirm what others have said - you need to reduce wage expenses by the FULL ERTC amount (both refundable and nonrefundable portions), excluding any interest received. The key thing to remember is that the ERTC is essentially the government reimbursing you for wages you paid, so you can't also deduct those same wages as a business expense. It would be double-dipping. For your $87k in 2020 and $112k in 2021 refunds, make sure you separate out any interest portion before calculating the wage expense reduction. The interest is taxable income but doesn't affect the wage deduction adjustment. One heads up - this will create a significant increase in your pass-through income, which means additional personal tax liability when you amend your 1040s. With amounts that large, you might want to consider making estimated payments to avoid underpayment penalties. The amendment process can take several months, so plan accordingly for the cash flow impact.
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Kolton Murphy
•This is really helpful, thank you! I'm new to dealing with ERTC amendments and the double-dipping concept makes total sense now. Quick question - when you say "separate out any interest portion," how do you identify that on the refund documentation? My refund checks just show the total amounts, and I want to make sure I'm calculating the wage expense reduction correctly.
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Caleb Bell
•Good question! The interest portion should be detailed on the IRS Notice CP49 or similar notice that accompanied your refund. If you don't have that documentation, you can also call the IRS at their Business & Specialty Tax Line to get a breakdown of principal vs. interest amounts. Generally, if your ERTC refund came more than 45 days after filing, there's likely some interest included. The interest amount will be reported to you on Form 1099-INT for tax purposes, but it doesn't reduce your wage expense adjustment - only the actual credit amount does. For your amendments, use the full credit amount (excluding interest) to reduce your wage expenses on lines 7/8 of Form 1120S. The interest gets reported as "other income" on your business return but doesn't affect the wage deduction calculation.
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