I aggree with Doggy. A legitimate marriage isn't going to affect your naturalization. You will have to report the fact you are married on your N-400.
As for her, she needs to be careful. She can stay in the US as a legitimate student on her F-1 until you are naturalized and can file for her as a spouse. If however, she wants to leave the country before then or otherwise loses her F-1 status, you should talk to an immigration attorney about that first lest she not be allowed readmission.

