Quote Quoting Dogmatique
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She cannot file as single.

The reason for this is very simple: She is married, and IRS generally doesn't like it when people lie about their status.

Certainly dump the CPA.
The only instance where it can maybe be ok to file as single when you are not, is if your spouse does not yet have a SSN or PTIN, and filing as single produces exactly the same result as married filing separately. In this instance you obviously have an SSN, since you are filing taxes yourself, and her filing as single absolutely does not produce the exact same result.

So I agree...she needs to dump the CPA.