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Yes but if the USCIS requires that you file jointly, then you should continue to do so. (For more information from the USCIS, please click here )
You can file as married filing separately but this option has more limitation than married filing jointly. In most instances, filing married filing separately will cause you to pay MORE in taxes (due to having more income taxed at a higher marginal rate) then filing as married filing jointly.
You will generally pay more combined tax on separate returns than you would on a joint return for the reasons listed under Special Rules (see below). However, unless you are required to file jointly, you should figure your tax both ways (on a joint return and on separate returns). This way you can make sure you are using the filing status that results in the lowest combined tax. When figuring the combined tax of a married couple, you may want to consider state taxes as well as federal taxes.
Special Rules
If you choose married filing separately as your filing status, the following special rules apply. Because of these special rules, you usually pay more tax on a separate return than if you use another filing status you qualify for.
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