You file either joint or separate. No one could tell you what is the better option without seeing your return.
Georgia does subtract non-Georgia income, if you file jointly, so your wife’s income will not be taxed. If you file separately, you’ll have to create another “mock” return and will not be able to e-file GA.
If you are using TurboTax Online, you’ll have to pay for another account. If you are using CD/Download you can create a separate married filing separate tax return and compare the result.
See How do I prepare a joint federal return and separate state returns?
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