I was able to get this to work by using the "C" command. But sometimes if I hit the triggers on my hand controllers, the copilot disengages and now I'm flying the plane by myself. I have tried pressing "C" again to re-engage the copilot and sometimes it works, sometimes it doesn't.
One thing I cannot figure out is where the overlays are in VR mode. I can press "M" and look down to see the map view. I can turn on and turn off the heads up display. But for the life of me, I cannot figure out how to use the overlays in VR mode. Do they not work or are they not visible?