I'm sure if you shim things correctly it'll work just fine. The geometry doesn't care how thick a piece of graphite is.
As far as axle height goes, that is adjusted with ride-height adjustors anyway, and this adjustment done to compensate for tire wear will have a bigger effect on the geometry of the rear pod than a shim thickness. Just make sure everything is tight and that the suspension moves freely (and of course that the pivot is centered), and you'll be fine.