So this is odd.
I've got FSX working wonderfully with some of the stock aircraft (172/Maule), but when I load other ones, I can't use the clickable cockpit... I can't flip switches and dials. The controls still work and anything that I've mapped to them works fine, it's just the mouse clicking for switches doesn't. The CTL-E autostart doesn't work either. The stock KingAir and stock 737 don't work for example.
If I turn off the rift and play on my monitor, the clickable cockpits all work fine.
I'm running win8.1 with SDK 0.6.0.0 and FSX-SE