In NJ, you don't get deductions that Fed and NY allow. The income for NJ will always be the larger number, you remove the NY wages. You then get credit for taxes paid to other states, which TT does automatically and it will be the wages from the IT NY forms adjusted, a completely different number. If in NJ you remove the wrong wages, you will have to adjust the NJ income and add back all the deductions not allowed in NJ such as healthcare, vs. if you remove the NY during the NJ interview, you will save that step and know you started with the correct income.
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