After you file

"If IRS is not crediting you with box 2 withholding you have to dispute their changes.

If the IRS letter doesn't tell you how to fix the problem,

you should reply saying you are going to amend and report the missing/correct federal tax withheld.

When you amend you have to include copies of both W-2s showing Federal tax withheld, and any other tax documents that show federal tax withheld."

The letter from the IRS says not to respond with Form 1040X, amended tax reform. They are asking for documentation to support the amount of withholding which is not on the W-2. At this point, I'm just going to send them the paper copies of the W-2, which DOES support the amount of withholding, even though it doesn't match the W-2 that turbotax used.