Prepare the New York nonresident form before the California return. Answer the questions in the interview. Yes, this may involve calculation on the part of the user.
Each state has its own rules for calculating taxable income for nonresidents. New York has one form, Form IT-203, Nonresident and Part-Year Resident Income Tax Return, that covers taxpayers who were nonresidents either part or all of the year. See this New York webpage for more information.
When you prepare California, you can claim a credit for any tax paid as shown on your New York return. TurboTax will prompt you for the information.
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