I'm the same guy who was having problems with my layer manager yesterday. Now I'm having a similar problem setting layers in various viewports. I set them (using VP freeze), they appear to be fine, I save, yada yada, but after a while all the layers turn back on within the viewports. Very frustrating.
I am starting to think that there is a fundamental problem with my layers system- possibly having to do with my profile setting, but I don't know enough about setting and managing profiles to know where to start.
Or it could be something else.