Right now, auras are organized only by loaded and not loaded. Given two tiers of MoP raid content, and two raiding toons, I currently have 30+ auras. It can be hard to organize them in a way that makes it easy to quickly find the one that I want to update/delete/etc...
I'm using naming conventions to get them to group and sort in a order that makes sense to me. What would be nice is if there was additional ways to group auras beyond just loaded and not loaded. If we could create our own groupings or folders to place the auras in, it would make managing them a lot easier imo.