AND....After the "Online" tax files are done archiving, then you will again have access to the Federal PDF, as it existed when you prepared it, but it won't reflect any changes you "might" make when you finish NJ and PA using the Desktop software.
Technically, if you prepared the Federal part properly, including ALL allowed Federal income Deductions & Credits, then adding the NJ and PA returns in the Desktop software shouldn't change the Federal part. But, if you discover you missed some items that changes your Federal tax return, then you may have to prepare and file a Federal Amendment for those changes before you finish off the PA & NJ parts.
____________*Answers are correct to the best of my knowledge when posted, but should not be considered to be legal or official tax advice.*
