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DaveF1006 This is very very helpful. I have a similar situation, but my wife is in FL and earned FL income (lives with our kids) and I am in CA in a rental on my own and travel back and forth (but earned CA income working in CA and was more than 183 days in CA). 

 

For federal it is easy, we do jointly and e-file

 

For CA, what should I do? Should I do jointly (the system asks me what amount of our combined W2 was in CA) or should I do separate? If separate, do I need to file alone or she needs to file too? We are allowed to do separate because she was a non resident all year.