Remote job and taxes

After completing the taxes on TurboTax with guidance with a tax specialist from TurboTax, I find that my questioning why New York is charging me over $1200 of taxes for the year. I learned from my supervisor at Maximus that he was informed the New York tax form should have never been filed because our company is a subcontractor based in the state of Virgina. Please advise me now since February of year 2020 if I have been working remotely as a new jersey resident.  Can I request a refund?