Well, this thread is old, but I found an answer: You need the Quake engine called “DirectQ”. It is based on DirectX 9. The original creator of DirectQ apparently no longer has a homepage. But the “DirectQ 1.9.0 Executable.zip” can be downloaded from here: https://www.quaddicted.com/files/engines/directq/
Works nicely for me, i.e. both eyes are rendered correctly in 3D. The only problem: the VorpX menu does not work. I.e. hitting the “Del” key does not show the menu. So you are stuck with the default 3D settings.