I'm running XP SP3, StrokeIt .9.6. I have dual monitors (main on the right, secondary on the left) and have a similar issue. If I right-click on the desktop, the StrokeIt gesture starts waaay off to the right. If I try to minimize all (down-left), the gesture-trail starts waay to the right, and then tracks the cursor down-left.
It doesn't matter which monitor has the cursor when I start the command. It just doesn't work.
I just got this PC with the dual-screen capability; StrokeIt worked just fine on my old one-screen system.
thanks, Scott