I see this on all our windows 7 workstations once in a while, and i think like Todd it is some graphics card/driver related. It seems like it fights over screendrawing, and i have only seen it with AE, but im not blaming AE to be the problem,
it just happens i spend ~90% of my time in AE so it usually is seen with AE :-D
I can fix it by quickly pressing the Windows key to bring up the start menu, that seems to force a redraw of the screen and everything is back to normal.
Now that you are on Win8 the win key of course works a bit differently. Maybe try to press Win+C to bring up the clock and Charms menu and see if that forces a redraw too and stops the flickering.
This is probably suited for Todd but if anyone else has experienced this, I appreciate the help. I keep getting what I've been referring to as an epileptic fit with AE. That seems the best way to describe it. Every once in a while (too often) it just
starts this spasming and flickering where I see all of the other windows showing through as it flickers. I've never lost anything due to this but it goes for like a full minute or more sometimes before it stops.
Any thoughts on what could cause this? I purge my memory probably way more than necessary, thinking that might help but it doesn't.
I'm running windows 8 and it's done it quite a bit and more so since the recent update to 8.1.