Default App Cleanup

I've been running low on space quite often when updating or adding certain large apps so I moved many apps to SD. I've been running the C11 nightlies and had alot of problems with them lately (lots of random reboots) so I tried flashing back the last snapshot (M5 I think). It really screwed things up so I reflashed one of my full backups which was even older. This worked fine and I was able to flash back up to the latest snapshot.

Here's the problem, android doesnt know about many apps that are on my SD card since I noticed many apps (that I had added after the last backup) were missing. I re-installed them, but now there's a mess with a bunch of orphaned apps on my SD card.
Is there a way to identify these and clean things up?
Using Droid Inc