For the super visa, the focus is on your ability to financially support her stay. Some ties to her country would also help.
You'll need to address the previous TRV refusal reasons.
To answer your question:
No, her employment + stating her husband as a family tie to return to will not negatively affect her chances of a super visa approval. In fact, it is a good idea to apply now when she is still employed.
She must include evidence of other such ties: Property/land ownership or a lease + any other dependent family member + financial investments + pension (if she needs to return to renew it, if she applies after she retires), etc