The presumption is that your client was an NRA before acquiring the green card in 2023.  Your understanding of how §911 works is also not exactly correct.

But going back to your question, that is definitely the result of how the data was entered.

AFAIK, none of Intuit's tax products can prepare d/s returns.  So, what you have is just a plain old 1040 return (to which you will need to manually attach a F.1040NR statement).  PS doesn't know any better than that being a full year return.  When you make the wrong input for F.2555, PS would think that the taxpayer qualifies.

If your client is married, it is possible to elect joint filing for the couple to be subject to US tax as FY residents, which could sometimes help lower the overall liability.  Nevertheless, that's not always the best choice even when it could reduce the immediate year's liability because there are other implications.  In case you have not explored that with your client, that may be worth considering.