I haven't heard of a problem filing with that. It's probably too late now but you could have put back the withholding from your own money and you would get credit for the withholding on your tax return. Now the withholding has become a taxable distribution by itself. And you still get credit for the withholding as usual.
BUT you do not put 0 for the RMD! Since there is no RMD required for 2020, after you enter the 1099R say it was NOT an RMD and then that you rolled it over (even if back into the same account).
If you already entered the 1099-R as RMD and changing your answer to the RMD question doesn't work then you have to delete and renter the 1099-R form.
