Since it is the IRS that rejected the return even though Intuit accepted it, the issue is Intuit's having the rejected return with the ssn/tin on its server. Then the corrected return naturally uses the same ssn/tin to efile and "conflicts" with the rejected file/return.

There should be an option for the authorized efiling preparer to delete the originally efiled but IRS rejected return so that the original return on Intuit's server is no longer there to conflict with the corrected return. This action has absolutely no negative effects since there actually has been no actual submission to the IRS. Literally "no harm, no foul". All of the "activity" is completely internal within Intuit.

I see no real or potential downside resulting from this programming tweak.