[cypher]

How long have you had her & how long has she been in the current cage? If it's not long then she may not have settled on a single spot to pee in, cleaning the whole cage is stressful for her & completely removing their scent is counterproductive really as they will get busy rescenting the cage & peeing in different places.
I wouldn't worry about spot cleaning until she's more settled then when you find the spot she seems to use most you could put a litter tray there with some chinchilla sand (not dust) or just fill it with her normal substrate (don't use the pellets sold for litter trays as they aren't safe) & put some wet substrate on top to encourage her to use it.
Sleeping outside the house is fine, they sleep where they want basically but make sure the house is suitable, large enough with no base & a good depth of substrate below, so she can use it if she chooses too.