I've encountered this a few times. An asm program crashes in the 84+ mode of the nspire. The crash should just be a ram clear away from fixing itself, but since the nspire emu saves the state, it has to reinstall the entire nspire os, just to get the 84 emu working again!
has anyone found a way around this? It's really annoying. I lose all my work, and I have to update my OS, which takes a good 15 minutes. (for several tasks, not just the transfer)