I don't have a huge collection of them but I do have to many too fit in a standard pencil case and finding the colour you want in a pencil case is never easy, the one you want is always the last one you come across.
There are only five compartments in this caddy so I figured I could get away with keeping two or three colours in each section. yellow/ peach and orange in one section, pinks reds and burgundys in another and so on. On the whole it seems to working for me so far. Although occassionally I do tend mix them up a bit.