Using control-center-1.0.6 makes windowmaker-0.60 a
"non-gnome compliant" wm -- root mouse clicks no longer work
and gnome pager refuses to start. With c-c-1.0.5, there are
WindowMaker-0.60 compiled with "--enable-gnome" etc...
I just tried the GNOME in the Lorax beta and the WindowMaker in the
Lorax beta together, and didn't experience any problems.
control-center doesn't have anything to do with a gnome-compliant
window manager's GNOME interactions, so I think it may be your local
installation of WindowMaker.