That's a feature... or at least half of it is. I have it set to open IM windows on a specific desktop, and I don't want it switching for them. Actually, I'd rather they didn't steal focus either, but Windows is very stingy with focus control. Now, it should switch if you focus something else and then back.

I dunno, it doesn't work completely right the way I want, maybe I should make it work the other way. :/ But if you're starting stuff from shortcuts/hotkeys/popups, you can have it do !vwmdesk first instead of using *vwmstart...