Well, take the Edge out of the video chain or make shure he passes the signal without touching (pass through). The Edge can only handle standard refresh rates like 50/60hz, and 3D is mostly 100hz or 120hz. So go directly from the lumagen EXT3d into the Marquee - but you will have ghosting because you can not add porches and or blank lines to give the green tube time to decay. But probably you have P43 phosphor in your Marquee. What is the serial number of your Marquee, and or what is the number on your green tube? If you have P43, that is very good for 3D, but not all can live with it in 2D.
Best regards from Munich