Well, I ran it with the --debugmsg --cx-log and got a 50+ MB log file to go through. I found the section where it lists the files being scanned. It showed the directory structure as "C:\\Mythic\\Darkness/anims/i_1fw_m.kfa" and such like that. I thought maybe the double-backslash and forward-slash thing might have something to do with it. I was told on IRC that this is not the case, and it is probably something else. So I will just have to keep trying.
I am not sure how to proceed with this now. Ugh...