Unfortunately ProSeries goes strictly by what you enter on the W-2 Wks.

I'm not exactly sure what you mean by "One spouse works and reports income to VA".  If that spouse lives in WV and is paid wages for working in VA, those wages are exempt from VA taxation and no VA income taxes should be withheld.  If they are withheld in error you need to file a VA 763S to get that money back from VA.  The tax needs to be paid to WV instead.

On the W-2 Wks in the state section, enter VA wages of $0 but include all of the VA withholding.  Add a line for WV wages for the full amount of wages but with $0 WV withholding.  That should make the right numbers flow to your NR Worksheet (VA) and then to the states.

Rick