I cannot replicate your situation b/c I already filed my own return, but I understand you should let IRS calculate the penalty and ask for a waiver. In fact, I searched and up popped a question here from a year ago, which you might find here:
Solved: Turbo Tax is calculating an estimated tax underpayment penalty. However, one of the IRS exce...
The expert response to that question suggests you can put in your explanation there...I just cannot see this in Turbo Tax to confirm.
