I have a stack of prequel fanedits in a clamshell (is that the right term?) in a drawer, collected while working on cutlists. The only prequel discs I have on my shelf are JasonN's trilogy. For the OT, I have SW:R and dark_jedi's ESB and ROTJ on the shelf. I don't really care about custom covers so I just use the original cases for all of these. I also have a bunch of docs (Jambe, OCP, etc.) that are not on my shelf but are kept in simple slim cases just to protect them.

I care less about display since I had a child that learned to walk and climb.