I used to always keep the cases in the drawer type CD holders. Went to binders for all my CDs and DVDs a couple of years ago and haven't looked back. I freakin' cleared at least 20% of the space around my computer, TV, and stereo doing that, and for me, it's way easier to find the disc I'm looking for in the binders versus thumbing through cases in a drawer.
I keep some of the thin flexible cases around for transporting discs when needed.