You will have to file a NJ tax return, but as I said chances are you won't owe anything. New York City dropped its "commuter" taxes years ago. So the taxes you will have to pay as a commuter are:
1. Federal, of course, but no change from what you've been paying
2. NY State - as a non-resident on income earned at you NY job
3. NJ as a resident, but you probably won't owe anything if you don't have any other sources of income other than your NY salary- this is because NY's tax rates are generally higher than NJ's. If you do have other income (capital gains, dividends, etc) you may well owe NJ some tax money.
I am not aware of any municpalities in NJ that have local income taxes, but it's possible depending on where you live.
Keep in mind that your commuting costs will most likely go up (NJ Transit and/or PATH fare into Manhattan).
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