I have a JB 2x4 and it's a great small light case. you will not have enough room for all the accessories you mention.
Might want to consider a larger (3x6) to accommodate larger pockets. I wish I had more storage space.
I agree, and yes, I do clean up my empty stuff. I wipe my cue tip on the cuff of my pants then wipe the cue with a microfiber towel before they go in my case. This really helps keep shafts clean. Hardly any dirt on my carbon fiber shaft when wiped with an alcohol wipe.