Well, there is indeed something wrong here, but I'm not sure what. I started a new joint return and transferred from a 2020 return with one W-2 for each spouse. I see an anomaly, but not as bad as what you described.
The EIN appears on two different screens. It's not clear to me exactly where you are seeing the wrong EINs, or where you replaced them.
The screen "Your W-2 info so far" lists the two W-2s and says "Needs review" for both of them. When I click Review for one of the W-2s, the first screen says "Let's Start With a Bit of Info from your W-2." It asks for only the EIN, which is pre-filled. If I click Review for the husband's W-2 first, it does indeed show the EIN from the wife's W-2. But if I click the wife's W-2 first (after starting over from scratch), it correctly shows the EIN from her W-2. In other words, no matter whose W-2 I select, it shows the EIN of the wife's employer.
When I click Continue on the screen with just the EIN, the next screen shows whose W-2 it is, and has the employer's name and address. On that screen the EIN is correct, even for the W-2 that had the wrong EIN on the previous screen. So I don't have to make any corrections. It has corrected itself.
The employers in the return that I am working with are not import partners, so the W-2s cannot be imported. I don't know if that makes any difference.
I will alert the forum moderators to this problem. They might contact you asking for additional information, either in this thread or in a private message or email. I put a lot of detail in my description above, as much for the TurboTax people to look at as for you.
