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This could be why. From Virginia:
Filing Status 2 - Married, Filing a Joint Return: You may use this status if you are married and (1) you filed a joint federal return; (2) both you and your spouse are Virginia residents, or (3) neither you nor your spouse was required to file a federal return. When only one spouse has income, a married couple should use Filing Status 2.
Filing Status 3 - Married, Filing a Separate Return: If you and your spouse filed separate federal returns, you may use this filing status. If you and your spouse filed a joint federal return, but only one of you is a Virginia resident, the resident must use Filing Status 3.
Virginia Filing Information:
Iowa state return automatically coded as married filing separately, while Federal is "maried/jointly" which is our preference.
Cannot find where to correct the filing status for Iowa
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