You should be fine if you go back through your NJ return to be sure that the 'credit for taxes paid to another state' has been calculated correctly. There should be an option to just go over NJ again without deleting it entirely.
The credit for taxes paid to the non-resident state is the primary reason for doing the non-resident return first. The non-resident tax can be calculated and then carried to the resident return for that credit.
@cc11jimmy
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