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After you file
There are no know issues in that area. I suggest deleting the 401(k) 1099-R and reenter. Be sure that you do not indicate in the follow up questions that you did something else with the money - you should choose that you took the cash. TurboTax will ask if the box 2a is the correct taxable amount and give you a chance to enter another amount if you have after-tax basis in the 401(k) - if you do not then box 2a is the taxable amount.
The box 2a amount will get added to line 4b. It works fine for me and I cannot get it to do otherwise.
In the forms mode, you can scroll down on the 1099-R form - nothing on page 2 (lines A1 to end) and beyond should have any entries for a standard 401(k) distribution that is all taxable. If there are entries then something was entered incorrectly.