After you file

TTax does not allow multiple accounts to be combined into one account (or to split a single account into multiple accounts).

You will have to manually add the information from one account to the account you have chosen to retain.  Generally it is better to pick the more complicated account and manually add the information from the other account. 

The IRS does not care whose name appears first.  However, once you select which name is the 'Taxpayer' and which is the 'Spouse' the IRS wants you to keep the same sequence year after year.