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There are more benefits for filing jointly but yes you can file separately if you choose. The benefit could be that filing separately, you do not assume legal and financial responsibility for the other spouse's tax obligations. So to answer your question, yes you can file separately if married in separate states if you choose. See article below for factors.
See link for married separately vs. jointly: https://www.thebalance.com/married-filing-separately-3193041
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