I've run into the bug/issue where I launch LOOT from within MO, and the window that comes up is an empty white box. It's unresponsive to clicks or keypresses, but it can be killed normally.
I tried launching LOOT natively, and got the same result.
So I reinstalled LOOT from its archive, and the problem vanished...for a while. After a couple runs, the white screen bug hit again.
This time I went and looked at the LOOT installation before reinstalling, and I found that everything within the "/resources" subdirectory had been deleted. Sure enough, I found it all in my recycle bin.
For some reason, MO decides to nuke that subdirectory during LOOT execution. Not always, though. I can't predictably reproduce the behavior, so I've no idea what's triggering it.
It's easy enough to workaround, just re-extract the "resources" subdir from the archive...but it is an annoying PITA.
Any of the MO devs care to take a look and/or shed some light on what's happening?
FYI, my setup is:
Mod Organizer v1_3_11
Win7 x64, Core i5-3570 @ 3.4GHz, 16GB RAM, 2GB GTX660
Skyrim LE + STEP:Core