File two taxes—a resident Pennsylvania income tax return because you are a PA resident and a West Virginia income tax return because WV tax was withheld by mistake.
TurboTax will ask whether you want to file a Special Nonresident return (Form IT-140). Click continue. WV will refund all your withholding as long as you did not spend more than 183 days in the state. Commuting (not spending the night) does not count as a day. See page 10 of the WV Income Tax Book.
Give your employer Form WV/IT-104 to stop WV withholding. Ask to have PA tax withheld.
There will be no credit for double-taxed income on the PA-40 because you are getting all your tax from WV. Delete the double tax form. You will owe to PA because you PA state tax was withheld.
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