You have to file a joint New York return. The following from the instructions for Form IT-203 applies to your situation.
If you filed a joint federal return and:
1) both spouses are nonresidents but only one has New York source income, or
2) one spouse is a part-year resident and the other is a nonresident with no New York source income,
you must file a joint New York State return using filing status 2 and include in the Federal amount column the joint income as reported on your federal income tax return. However, only the spouse with New York source income (or the part-year resident spouse) should sign Form IT-203. That spouse must also complete Form IT-203-C, Nonresident or Part-Year Resident Spouse's Certification (see Other forms you may have to file), and submit it with your Form IT-203. In this case, any refund or notice of tax, penalty, or interest due will be issued only in the name of the spouse required to sign Form IT-203.
I don't know what the New York standard deduction amounts are for 2020. They might not have published them yet. For 2019 the standard deduction for married filing joint return is $16,050.
