CST HELPA dd solids together to make one single solid without material changing

Hi Guys,
I have a problem with CST. Basically I have two objects, the substrate and the microstrip. The microstrip has a via going through the substrate and is connected to the group plane on the bottom. I need to perform a parameter sweep which involves moving the board, but I need the board to be one object so I can just move the entire thing at one time. When I add the shapes one becomes the other material automatically, when i insersect it doesnt work, when i insert it doesnt work, when i imprint it doesnt work, its giving me a headache. It really doesnt like the via going through the board when using these boolean operations, it tends to cut it out of the board and just leave a hole.If anyone knows a way to do this please let me know, or if anyone knows how to perform a parameter sweep when two object can move at the same time please let me know.
Any help would be greatly appreciated.
Many Thanks

Looks like im screwed anyway, seeing as the waveguide port would have to move with the structure and Im pretty sure you cant do that.