I also had 2 W-2s this year with the same EIN, one was an agent of the other. I spoke with a TurboTax representative on the phone to figure out how to fix this issue. They said "I read and article online which says TurboTax cannot handle this scenario." Sounds like the bug has still not been fixed.
I have really enjoyed using TurboTax over the past several years. But, if their suggestion is "go away" rather than any kind of help, I don't think I will be a customer any longer.
