If you were WI resident, you don't remove the income from WI return, your income from all sources is taxed on your WI return. However, Wisconsin allows a credit for the net income tax you pay to other states on income that is taxed by both Wisconsin and the other state.
As Venessa mentioned, you need to file nonresident MN return to report the income from the 1099 form and determine the amount of net tax paid to that state. Then, amend WI to claim credit for taxes paid to another state on Wisconsin Schedule OS.
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