Just earlier this evening, my right-click popup started popping under my Miranda window. I'm using the Mire LS theme, and I've tried changing Miranda to "pin to desktop," but the problem persists. Miranda seems to be the only program exhibiting this behavior. Anyone have an idea as to what's going on?

Known problem for me also...

i have this problem with samurize sometimes, usually a combination of restarting samurize instances, and refreshing litestep works.

Yeah, it stopped doing it a couple hours ago, after I'd fiddled around wit different themes.