There is nothing you can do to speed up the processing of the 2020 return, unfortunately. They will process it separately from your 2019 return, so the $3.22 balance owed should NOT affect the processing time of your 2020 return. Worst case is that they deduct the $3 from this year's refund.
However, because the APTC repayment was waived for 2020, it is unlikely that it will cause any hold up on this year's return. The best way to make a payment to the IRS is on the IRS website. It is worth the time to set up an account there so you can have access to your IRS account information and be able to make payments quickly and efficiently.
The IRS issues refunds, not TurboTax. The APTC issue is what caused the IRS to hold up your 2019 return and you will have to contact them to find out more about the processing of that return. Fortunately, that will not be an issue with your 2020 tax return.
When to contact the IRS
What makes refunds late?
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