I feel your pain, I’m ripping my hair out with my new X2’s as well.
I have found them to be extremely fussy on setup, so much so I’ve spent days over them trying to get them running as per the Hope videos on youtube. You are right, my pistons sit slightly proud of the caliper too.
Strangely enough its only my rear brake that I’ve had issues with, the front was relatively easy to set up.
It got that bad I had my digital calipers and feeler gauges on set up and measured every distance etc that I can! I am using Hope discs
Disc thickness – 1.82mm
Piston face to disc face (fully retracted piston and no pads) 4.0mm when centered (ie 4mm both sides)
Pad face to disc face (With pads and all centered) 0.1mm
My problem is that I can everything set up to a gnats nut, but come back from a ride and the inboard pad deflects the disc by about 0.5 – 0.75mm, every time I ride I have to reset the poxy things.