I had the exact same issue. Some programs and settings were gone, some were still intact. Same sluggishness, same error message. The problem cleared up after a few resets. I reloaded everything that was gone. Weird. Never really found (or looked for) an explanation.
I'm also running the same version of Task Manager (aka X Button). Seems to be working fine for most people though. I'm not totally convinced it is the issue. Also running S2U2 (not sure what version at the time of the error).
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