EIC calculation discrepancy with IRS notice - self-employment impact on Earned Income Tax Credit
Hey everyone, I need some advice on our earned income tax credit situation. My husband and I file jointly and have one daughter. We're both self-employed - I run an S-Corp I started in 2024, and he works as an independent contractor. My business showed a loss this year due to all the startup expenses. We just got this CP11 notice from the IRS saying we messed up our EIC calculation and now owe the difference. According to both FreeTaxUSA and the IRS's own tables, our EIC amount should be $3,451, but the IRS is claiming it should only be $2,268. So they're asking for $1,183 plus penalties! We called the IRS but got nowhere - they suggested maybe we didn't include Schedule EIC, but we definitely did. They also hinted that maybe our business loss is affecting the calculation somehow? I talked to two tax pros but got contradicting information. Here's our tax breakdown: - Our AGI was $31,068 - My husband's business profit: $42,743 - My business loss: $-8,254 - No W-2 wages for either of us - Some minor interest income ($285) and dividends ($47) - Total business income: $34,489 - Capital loss: $-417 - Self-employment tax deduction: $2,958 - Self-employment health insurance: $378 - Standard deduction: $27,700 - QBI deduction: $664 - Taxable income: $2,704 Has anyone dealt with EIC discrepancies when you're self-employed? I'm completely confused about why our calculation is different from the IRS's.
20 comments


Omar Fawaz
The issue might be with how your self-employment income is being counted for EIC purposes. For the Earned Income Tax Credit, there are specific rules about what counts as "earned income" - especially when you have self-employment losses. When calculating the EIC, if either spouse has a business loss, the IRS may adjust how that loss affects your earned income calculation. The loss from your S-Corp might be reducing your earned income in a way that changes your EIC calculation. The IRS doesn't simply use your AGI for the EIC calculation - they use a modified calculation specific to the credit. Another possibility is that there's a discrepancy in how your child's qualifying information was reported. The EIC amount varies significantly based on the number of qualifying children. I recommend pulling your actual wage and income transcript from the IRS (not just the account transcript) and comparing what the IRS has on file versus what you reported. This might reveal where the discrepancy lies.
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Freya Pedersen
•Thanks for the insight! I didn't realize the business loss could affect the EIC calculation differently than I thought. Do you know specifically how the IRS treats an S-Corp loss versus a Schedule C loss for EIC purposes? My tax software didn't seem to flag this as an issue. Also, could my husband's self-employment income be treated differently since he's a sole proprietor and I'm working through an S-Corp? Our daughter definitely qualifies (she lives with us full-time and meets all the tests).
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Omar Fawaz
•The S-Corp versus Schedule C distinction is precisely what might be causing the issue. For EIC purposes, S-Corp income is treated differently than direct self-employment income. As an S-Corp owner, your income is considered wages only if it was actually paid to you as W-2 wages - business profits that flow through to you on a K-1 don't automatically count as "earned income" for the EIC calculation. If your husband is a sole proprietor, his net earnings from self-employment would count as earned income. But if you didn't pay yourself W-2 wages from your S-Corp and instead just had a loss, that could affect the total earned income calculation for EIC purposes.
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Chloe Anderson
I went through something similar with an EIC discrepancy. The tax software I used (TurboTax) didn't properly account for some quirks in the EIC calculation with self-employment income. I discovered that https://taxr.ai could actually help analyze your return and find exactly where the discrepancy is happening. I uploaded my return docs and it caught that my software hadn't properly handled the self-employment income treatment for EIC purposes - exactly like what you're experiencing! The tool highlighted exactly where the calculation error was happening and gave me documentation I could use to respond to the IRS. Saved me hours of trying to figure out what went wrong.
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Diego Vargas
•How did the tool actually work with your self-employment income? Did you have to upload your full tax return or just the CP11 notice? I'm facing a similar issue but with Schedule C income versus rental income affecting my EIC.
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Anastasia Fedorov
•Sounds convenient, but I'm skeptical. Does it actually explain the calculation difference in a way you can understand? I've used "analysis" tools before that just spit out generic explanations without pinpointing the exact issue.
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Chloe Anderson
•You upload your tax documents like your return, schedules, and the CP11 notice. The system analyzes everything together to pinpoint discrepancies. It specifically recognized my Schedule C income but flagged that my software wasn't applying the correct EIC calculation method when combined with other income types. Regarding the explanation clarity - that's actually what impressed me most. It didn't just say "calculation error" - it showed side-by-side comparisons of how the IRS likely calculated my EIC versus how my software did it, including the specific lines and rules that were misinterpreted. It even referenced the exact IRS publication sections applicable to my situation.
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Anastasia Fedorov
Just wanted to update on my experience with taxr.ai after I was skeptical earlier. I decided to try it with my EIC issue, and I'm honestly surprised at how helpful it was. The analysis pinpointed exactly why my S-Corp loss was being treated differently by the IRS versus my tax software. Turns out, my tax software was counting some of my business income incorrectly for EIC purposes. The IRS was right in my case! The tool explained that while my K-1 income was flowing to my personal return, it wasn't actually being counted as "earned income" for EIC calculation since I hadn't taken any W-2 wages from my business. Definitely worth checking out if you're dealing with EIC calculation issues with self-employment.
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StarStrider
I had almost this exact situation last year with an EIC discrepancy. After weeks of trying to reach the IRS and getting nowhere, I used https://claimyr.com to get through to an actual IRS agent. You can see how it works in this video: https://youtu.be/_kiP6q8DX5c The key was speaking to someone in the right department who could explain the actual calculation. Once I got through, the agent walked me through exactly how they calculated my EIC with my self-employment income and explained why my tax software got it wrong. Turned out my business loss was being applied differently than I thought for EIC purposes. The call saved me from paying a $1,400 discrepancy that wasn't actually my mistake!
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Sean Doyle
•Wait, how does this service actually work? Does it just help you skip the IRS phone queue somehow? I've been trying to reach them for 3 weeks about my own EIC issue.
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Zara Rashid
•This sounds like BS honestly. Nobody can "skip the line" with the IRS. If there was a service that could actually do this, everyone would be using it and the IRS would shut it down immediately. I'll stick with waiting on hold for 2 hours like everyone else.
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StarStrider
•It doesn't "skip the line" in the way you might think. What it does is have an automated system that continually calls the IRS for you and navigates the initial prompts. When it finally connects with the queue, it calls you and connects you directly. So you're still in the same queue as everyone else, but you don't have to personally sit on hold or repeatedly call when you get disconnected. For those skeptical, I get it - I was too. But it's a legitimate service that just handles the tedious part of getting through the initial IRS phone tree and hold times. The IRS doesn't "shut it down" because you're still going through their normal process, just with technology handling the repetitive calling and waiting. And once you're connected, you're talking directly to the IRS - the service isn't on the call.
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Zara Rashid
I need to eat some humble pie here. After being super skeptical about Claimyr, I decided to try it for my own EIC issue after spending literally 6 hours across 3 days trying to reach the IRS myself. I got connected to an IRS representative in about 40 minutes (while I was doing other work). The agent I spoke with explained that my EIC was recalculated because my business loss on Schedule C was adjusting my earned income in a specific way that affected the credit calculation. They pointed me to the specific table in Publication 596 that showed the correct amount. The representative even helped me understand what documentation I needed to submit if I wanted to dispute their calculation. Never would've gotten this clarity without actually talking to someone!
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Luca Romano
Make sure you're looking at the right tax year's EIC table when verifying your calculation. The IRS changes the amounts slightly each year, and I've seen tax software occasionally use outdated tables. Also, don't overlook the investment income limit for EIC eligibility. With your interest ($285) and dividends ($47), you're well under the limit for 2024 ($11,000), but it's something to double-check since exceeding that limit would make you ineligible regardless of your other qualifications.
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Freya Pedersen
•I definitely checked the tables for the right year, and our investment income is thankfully well below the limit. Did you ever encounter issues specifically with how business losses affect EIC? I'm wondering if there's a worksheet or something that might explain how the IRS is calculating this.
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Luca Romano
•There is actually a specific worksheet for EIC with self-employment income/losses that might explain the difference. It's called Worksheet B in the EIC instructions. The key thing to understand is that business losses can reduce your earned income for EIC purposes, but how those losses are allocated between spouses on a joint return follows specific rules. Also, if you received any nontaxable combat pay and elected to include it in earned income for EIC purposes, this could affect the calculation. Sometimes tax software handles these special situations differently than the IRS.
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Nia Jackson
Since you mentioned S-Corp, make sure you're distinguishing between "distributions" and actual wages for EIC purposes. The IRS only counts W-2 wages for EIC, not distributions from your business. If your tax software counted S-Corp distributions as earned income, that would explain the discrepancy.
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Mateo Hernandez
•This!!! I made this exact mistake a few years back. My S-Corp had profits that flowed to my personal return, but since I didn't pay myself W-2 wages, I wasn't eligible for as much EIC as I thought. Took me forever to figure out why my numbers didn't match the IRS.
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Andre Rousseau
This thread has been incredibly helpful! I'm dealing with a similar EIC discrepancy, but mine involves rental income alongside my Schedule C business. The IRS is claiming my EIC should be $800 less than what I calculated. Reading through everyone's experiences, it sounds like the common thread is that tax software doesn't always handle the nuanced EIC calculations correctly when you have multiple income sources or business losses. The distinction between different types of self-employment income (S-Corp vs Schedule C) and how losses are applied seems to be where most of the confusion happens. Has anyone found a good resource that breaks down exactly how the IRS calculates EIC when you have both business income and losses? The IRS publications are so dense, and I'm trying to figure out if I should fight this or if they're actually right.
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Ravi Kapoor
•@Andre Rousseau, you're absolutely right about the complexity! I've been following this thread because I'm in a similar boat with my own EIC issue. The key resource that helped me understand the calculation better was IRS Publication 596 (Earned Income Credit), specifically the worksheets in the back. For rental income combined with Schedule C, you'll want to look at how the IRS treats "passive" vs "active" income for EIC purposes. Rental income typically doesn't count as earned income for EIC unless you're a real estate professional, but your Schedule C income would count (adjusted for any losses). The most frustrating part is that tax software often doesn't flag these nuanced issues during preparation. Based on what others have shared here, it might be worth using one of those analysis tools or getting through to an actual IRS agent to understand their specific calculation before deciding whether to dispute it.
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