NY State Filing Status for NJ Resident

Hi,

 

My wife and I are both NJ resident. She works in NJ but I works in NY. We’re planning to file jointly for Federal tax and NJ tax. But before filing for NJ tax, can I file non-resident NY tax separately? Does my wife need to file non-resident NY even though she doesn’t earn NY income? I’m asking because when I tried to file NY jointly, TurboTax counts my wife’s NJ income and showed we owe NY tax.