ideally you want backups/copys.
like i have one for modding, one for online, one for single player.
if you only have one base gta v folder within your documents then you're gonna need a fresh install of gta to play online w/o getting banned, as for single player same applies if you've modded anything outside of the mods folder then even if you re-name or move the mods folder, the modded files will still carry over to single player as far as i'm aware.