At least that part of the puzzle is obvious: Users should never touch system files nor have to look at them. I never want to see any asfawe.sdwae file ever aga

At least that part of the puzzle is obvious: Users should never touch system files nor have to look at them. I never want to see any asfawe.sdwae file ever again. Its like keeping power tools in the cup board or having screwdrivers in your utensils drawer. Its like keeping the manual in the washing machine. You open the door and instantly know it's a ridiculous idea. The user should be able to do what he wants, anything should go, there should not be any bad moves besides deleting their own stuff, they should be able to simply delete everything. Make it a partition with a warning prompt.