If I'm building a speaker box, there's no way in hell I would just use screws or nails. I pre-drill all holes(stupid MDF), screw it together to check for fit, then remove the screws. Now I can glue all the joints and screw it back together. That way I can keep working on the box until the glue sets. I always wait overnight, then REMOVE the screws, as they are completely useless once the glue dries.
I've carried that tradition over to building joystick boxes. Pre-dill, glue and screw. Only the bottom panel can be removed, and it uses the same 4 screws to hold the rubber feet in place and the panel to the box. So that way, the entire box looks screwless. I even route a 1/2" deep depression for the joystick base and then epoxy it in there. That way, no screws anywhere, the whole box relies purely on glue.