i have the exact same setup as you have on your truck. SLR stage 1 with 1" shackle in the rear. Fabtech AAL which i already had then added in a rancho AAL for a slight rake. i've been running this setup for about 3 months now. been wheeling a few times including trails at paragon during ECXC this past weekend. in my opinion the ride is harsh with 2 AAL's stacked and it probably isnt the best way to achieve the lift you want but its my truck.
no alignment problems here. print out the SLR alignment specs from the SLR website and if you cant get them into those specs call SLR and get them to send you another set of upper A arms.