Difficult to say from here since we don't see the return.
Yes, you should do the non-resident North Carolina return first, allocating on the North Carolina income from the current job W-2. (Amount A)
Next you'll do your resident Virginia return. VA will claim all your income, (Amount A + Amount B) but will also give you a credit for the tax paid to NC on the NC portion (Amount A) of income.
If the W-2 was uploaded, I suggest they be deleted and entered manually, (First try to just edit Box 15, 16 and 17 of the current W-2 to see if that takes care of things)
(I have not seen questions with your particular concern, but uploading documents often causes issues)
Let us know if this takes solves the problem or if you need additional help.
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