I have used docking windows in a few of my mods as well but never had any problems as the page that snaps to the docking window is not user movable anyway ... But the window as a whole is.....
If "clickthrough" would just hold its setting then you could just make the docking window / dummy window as you call it full screen then set pack location etc etc maybe?
I mean if its full screen then no need for anything to save its position lol (well maybe "allow windows offscreen" would fubar this but I dont think so)
