How to handle having both 1042-S and W-2 income in the same tax year?
I'm currently dealing with a complicated tax situation and could use some advice. I'm a resident alien for tax purposes who worked two different jobs in 2024. From January through April, I had a regular job with W-2 wages in Florida. Then I moved to California for a postdoc fellowship position from June through December, which I'm told will be reported on Form 1042-S (won't get this form until after February 15th). During my previous academic work, everything was on a W-2, so taxes were simple. But now with this fellowship income reported on 1042-S, there's no tax withholding happening. A colleague mentioned I should file quarterly estimated taxes to avoid penalties, and specifically suggested filing before January 15th to avoid penalties for 2024. I'm really confused about several things: 1. Do I need to use Form 1040-ES for these estimated taxes or just file a regular 1040? 2. Is there an advantage to filing before January 15th, or should I wait until April? 3. Should I just wait until I have both my W-2 (late January) and 1042-S (March) to file everything together? Or is it better to file estimated taxes now for the fellowship income and then amend later? Any guidance would be super helpful as I'm completely lost on how to approach this!
20 comments


Yuki Sato
Your situation is actually pretty common among academic researchers! Let me break this down: For your January 15th question - this deadline is for making your fourth quarter estimated tax payment for 2024, not for filing your actual tax return. This is just to cover the taxes you should have been paying throughout the year on your fellowship income. To answer your specific questions: 1. Use Form 1040-ES to make estimated tax payments. Form 1040 is your actual tax return that would be filed later. 2. If you haven't been making quarterly payments all year, you should make an estimated payment before January 15th to reduce potential underpayment penalties. Your actual tax return is still due April 15th. 3. The January payment and April filing are separate things. Make your estimated payment now, then file your complete tax return after you have all documents. Since your fellowship doesn't withhold taxes, the IRS expects you to make these payments yourself throughout the year. The January 15th payment covers October-December 2024 income. Even if you pay now, you'll still file your complete return after you have all your forms.
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Carmen Flores
•Thanks for the explanation! So just to be clear, if I make an estimated payment before Jan 15 using 1040-ES, will that completely eliminate any penalties I might face for not having made quarterly payments earlier in the year? Or am I still going to get hit with some penalties regardless?
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Yuki Sato
•The January 15th payment won't completely eliminate penalties for missed earlier quarters. The IRS assesses underpayment penalties for each quarter you should have paid but didn't. Making the January payment only prevents additional penalties for the fourth quarter. The good news is that penalties are calculated based on the amount underpaid and how long it was underpaid, so they're usually not enormous. Also, if your W-2 job in the first part of the year had sufficient withholding, that might offset some of the underpayment from your fellowship months.
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Andre Dubois
Just wanted to share my experience with this exact situation! I was getting absolutely nowhere trying to figure out the 1042-S and W-2 combination until I found https://taxr.ai which completely saved me. I uploaded my documents and it instantly identified that I needed to make estimated payments AND explained exactly how to calculate the right amount based on both income sources. It was super helpful because it showed me how to properly report fellowship income on my tax return (it's not as straightforward as regular W-2 income) and calculated my potential underpayment penalty. The system even generated a filled-out 1040-ES form that I could just print and mail with my payment. Definitely worth checking out if you're confused about the process.
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CyberSamurai
•Does it work with international tax situations too? I'm on an F-1 visa with OPT and have similar issues with multiple income sources. Would this actually help with figuring out treaty benefits too?
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Zoe Alexopoulos
•Seems kinda sketchy tbh. How much does it cost? And how does it actually get the right answer when even tax professionals seem confused by the 1042-S stuff?
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Andre Dubois
•It absolutely works with international situations! I was on a J-1 visa when I used it, and it correctly applied my tax treaty benefits. It asks about your visa status and home country, then applies the appropriate rules. Super helpful for navigating the special rules that apply to nonresidents and residents for tax purposes. The pricing is reasonable for what you get - it's not just a calculator but actually explains everything in detail. As for accuracy, it's built specifically for academic and research positions, so it's really good with fellowships, scholarships, and the various ways different universities might report this income. I was skeptical too, but my accountant friend confirmed everything it recommended was correct.
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CyberSamurai
I tried taxr.ai after seeing it mentioned here and wow - it was exactly what I needed! I was completely lost trying to figure out my 1042-S income alongside my campus job W-2, and the regular tax software I used before just wasn't designed for this situation. It walked me through everything step by step, explained which parts of my fellowship were taxable (turns out not all of it was!), and even showed me how to claim a foreign tax credit for some taxes I paid in my home country. The estimated tax calculator showed me exactly how much I needed to pay for each quarter. The best part was being able to chat with the system when I got confused about something specific to my visa status. Honestly saved me so much stress and probably hundreds in penalties I would've incurred from filing incorrectly!
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Jamal Carter
If you're still having trouble with the IRS or need to speak with someone directly about your situation, I highly recommend using Claimyr (https://claimyr.com). I was in a similar position with mixed income types and the IRS kept sending me automated letters about underpayment. I spent WEEKS trying to get through to an actual person at the IRS with no luck. Claimyr got me connected to a real IRS agent in about 20 minutes when I had been trying for days on my own. They have this system that navigates the IRS phone tree for you and holds your place in line, then calls you when an agent is actually available. You can see how it works in this video: https://youtu.be/_kiP6q8DX5c The IRS agent was able to confirm exactly what I needed to do with my 1042-S income and set up a payment plan that avoided most of the penalties. Totally worth it for the peace of mind alone.
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Mei Liu
•How does this actually work? Like do they just call the IRS for you? Couldn't I just do that myself and save whatever they charge?
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Liam O'Donnell
•Yeah right, nobody gets through to the IRS. I've been calling for 3 weeks and can't get past the automated system. If this actually works I'll eat my hat.
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Jamal Carter
•They don't just call the IRS for you - they have a system that navigates through all the automated menus and waits on hold for you. When an actual human IRS agent picks up, that's when they call you and connect you directly. No more spending hours listening to that awful hold music! You could technically do it yourself, but the problem is the IRS often has wait times of 2+ hours, and if you call during peak times, they might not even put you in the queue at all. The beauty of Claimyr is that their system can keep trying and holding while you go about your day. When I used it, I went grocery shopping and was making dinner when I got the call that an agent was on the line.
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Liam O'Donnell
I need to apologize for being so skeptical about Claimyr. After posting that snarky comment, I was desperate enough to try it anyway. I had been trying to reach the IRS for WEEKS about my 1042-S reporting requirements with absolutely no success. Used the service yesterday afternoon, and they actually got me through to a real person at the IRS in about 45 minutes. I was shocked. The agent walked me through exactly how to handle the fellowship income and confirmed I could avoid most penalties by filing Form 2210 with a proper explanation of my situation. For anyone dealing with this complicated tax situation where you really need to speak to someone at the IRS - this service actually works. I'm still surprised, but incredibly relieved to finally have clear answers about my tax obligations. Worth every penny just for the stress reduction.
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Amara Nwosu
Just a heads up - when you file taxes with both W-2 and 1042-S income, make sure you're using tax software that can handle this properly. I tried using the free version of [popular tax software] last year and it completely messed up reporting my fellowship income. Ended up having to upgrade to their premium version which had the forms I needed. Also, keep really good records of what portion of your fellowship was for tuition/fees vs. living expenses, as they're treated differently tax-wise. My university wasn't very clear about this on the 1042-S.
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Ethan Wilson
•Thanks for the advice about the tax software! Does anyone have specific recommendations for which software handles these forms best? I've used TurboTax in the past but not sure if it's good for this situation.
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Amara Nwosu
•In my experience, TurboTax Premier and H&R Block Premium both handle this situation correctly, but neither of their free versions do. TaxAct also worked well for me and was a bit cheaper. The key is looking for versions that specifically mention support for foreign income or fellowship/scholarship income. I'd also recommend downloading or printing the instructions for IRS Form 1040 Schedule 1, as that's where you'll report the fellowship income if it's not on a W-2. Having those instructions handy helped me understand what the software was asking for.
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AstroExplorer
Don't forget about state taxes! If you worked in two different states like you mentioned, you'll probably need to file part-year resident returns for both states. This gets complicated fast when you have different income types.
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Giovanni Moretti
•This is such an important point! I worked in Illinois and then California and had to file partial year returns in both. California especially got confusing because they wanted to tax my worldwide income for the part of the year I lived there.
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Aliyah Debovski
I went through this exact situation last year! A few additional tips that helped me: 1. **Calculate your safe harbor amount** - If your prior year tax liability was under $1,000, you may not owe any estimated tax penalties at all. If it was higher, paying 100% of last year's tax liability (or 110% if your AGI was over $150k) through withholding + estimated payments will generally protect you from penalties. 2. **Consider Form 2210** - Even if you missed some quarterly payments, you might be able to avoid penalties by filing Form 2210 with your return and showing that your income was uneven throughout the year (which it sounds like it was, since you started the fellowship in June). 3. **Double-check your 1042-S reporting** - Fellowship income from a 1042-S typically goes on Schedule 1 as "other income" rather than being treated like regular wages. Make sure whatever tax software you use handles this correctly. 4. **Keep documentation** - Save all your fellowship award letters and any communication from your university about the tax treatment. Sometimes there are special provisions for certain types of research fellowships. The January 15th estimated payment is definitely worth making to avoid additional penalties, but don't stress too much about the earlier quarters - the penalties are usually manageable and there are often ways to reduce them when you file your actual return.
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Nia Wilson
•This is incredibly helpful! I had no idea about Form 2210 potentially helping with uneven income situations. Since my fellowship didn't start until June, that definitely applies to me. Quick question about the safe harbor calculation - when you say "prior year tax liability," does that include both federal and state taxes, or just federal? My 2023 return was pretty simple since I was just a student with minimal income, so I'm hoping I might qualify for that under $1,000 threshold. Also, do you happen to know if there's a difference in how fellowship income is treated if you're still technically a student (ABD status) versus being classified as a postdoc employee? My university seems unclear about this distinction on my paperwork.
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