First, double check with her employer to be sure that the W-2 is correct and also verify that she is not enrolled in a High Deductible Health Plan (HDHP).
If it is correct and she does in fact have a Health Savings Account with funds deposited and she is not covered by a HDHP, then she will need to withdraw those funds prior to the due date of the 2019 tax return to avoid a 6% over-contribution penalty.
As you go through the HSA section of her return, you will indicate that she was not covered by a HDHP during the year. This will generate messages telling you that the contribution to the HSA will need to be withdrawn. You can indicate that it will be done by the due date of the tax return and an additional penalty will not be assessed on the return.
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