Asking CC3-specific questions at the official ProFantasy forums ( http://forum.profantasy.com/ ) might be the quickest way to get a solid answer. It's hard to diagnose the problem that you describe without seeing an example of the image before effects are turned on and after they are turned on.
A quick question: if you type REDRAW on the command line before messing with the effects, do your contours still disappear? If so, the problem is that a drawing tool is putting the stuff that you want to add behind stuff that's already there due to the ordering of sheets in your drawing and the tools that you are using.