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Thank you for your help! I have asked the university, and due to an administrative issue, half of my W2 wages show up in Boxes 5-6 and were subjected to medicare tax. This was an error though and I should have been fully exempt, but the university said they cannot refund me that tax money for the part that was done in error and cannot issue a corrected W2. They did give me a letter of support that I could use when I file 843, so I am planning to file form 843 to ask for the W2 FICA taxes.

But TT also factors the W2 Box 5 Medicare wages into form 8959 - which should have been $0, but given the error there is this additional medicare tax that gets added due to filing jointly with my wife. Is there a way to ask the IRS for a refund for the difference in the 8959 tax by explaining what happened, that I cannot get an official corrected W2, etc? Or how should I proceed? I was not sure if form 843 can be used for the W2 FICA error and also the error that resulted in the 8959 calculation?