If the IRS is holding the original refund until you send in the amended return then the amount of the original refund on line 18 should be zero. SO ... if you are using the downloaded version you can manually change the amount on the 1040X OR print the 1040X and manually change the line 18 amount and recompute the rest of the form. Either way you will need to mail in the return to the address on the IRS notice using the notice as a cover sheet.
