The first one shouldn't be happening, I'll look into it. The second, however, is a side-effect of the theme process. There's really not anyway around it, it's extremely intrusive but it's required for the visual effect. You'd have to disable most of the Blizzard frames to "fix" it.
I have a problem - everytime I'm in combat and press M (map) and press M again to hide map, all the ui disappears from screen so I have to press Alt-Z to get it back. I know it's VisualThemes that is the root of the problem, can you come up with a fix?