Yes, your Non-Resident state of New York will also tax all your income (as it's NY source income).
You should break even with NY (your income was earned and taxed there appropriately) or owe very little.
Your resident state should end up taxing you nothing (or you may get a refund), since your income was earned in NY, and they give you credit for tax you paid on your entire income to NY.
Basically you are earning income (and being taxed on it) in NY. You are just reporting the income that you earned in NY to NJ (since you're a resident) and paid tax on to NY.
Since we can't see your return in this forum, you may want to Delete your Resident State and prepare your Non-Resident State first, then your Resident state.
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