Don't worry about your 2025 return. Late payment penalties normally don't carry over year to year, so your 2025 return won't care that you had a late payment penalty in 2024.
I would just make a happy note that you received and cashed the check and put it in your tax files. There is no need to worry about this for your 2025 return.
P.S., Think kindly of the employees in your state's taxing agency - they really are trying to do the right thing, just like at the IRS.
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