Should I factory reset my 3ds?

Hey guys I just bought a 3ds it was modded with an 8gb sd card but I'm getting a 64gb micro sd card with an sd card adapter and I don't have an sd card reader for the one that's in the console only a micro sd card reader so if I factory reset my console with the sd card that's in the console will it brick my console? It has homebrew and all the other custom firmware mods. I really need help on what to do.