"Her" federal "our" return.
Did she file Married Separately, and then amended to Married Joint? When doing a 1040X amended return, the refund meter resets to zero. Then only any changes are shown. Amended returns must be filed by mail. After 3-4 weeks, you can start checking here:
https://www.irs.gov/filing/wheres-my-amended-return
Please explain exactly what she/you did.