Tongue_tied-
I've got the same shoes, they are really stiff in the sole, and that is good. But they also come with the BG footbed which is available with various amounts of arch and metatarsal button; red- little support, flat foot, blue- more arch support for flat to regular arch and green-for high arch. There are also wedges that fit under the footbed in the toebox area to position the foot/leg at the right angle. It may be that the standard footbed isn't quite right for your feet.

And yes also check cleat position.