If they are the stock automatic hubs then its not too bad. I swapped my auto hubs to manuals a while ago so I'll try to remember as much as I can from memory, although I may miss a few steps:
Auto Lockout Removal:
-pull the three screws out
-remove the lock ring around the perimeter of the hub; follow your finger around the ring to find a small open section where you can insert a small sharp metal object (punch tool, small screw driver, small hex key, any of these should work), pry 1 part of ring out with tool and use another tool to follow all the way around the ring until it pops out
-insert 2 screws back into into the hub and use them to pull the locking assembly out
-remove retaining ring and thrustwashers
-cam assembly will slide right out
-remove lock ring; there is a prong driven into wheel retainer which can be a bit of a hassle to remove, I ended up bending mine while removing it (but I swapped to manual lockouts so I didn't need the part); a pair of needlenose pliers might help getting this out
-remove outer wheel bearing
Brake removal:
-remove 2 bolts on back of caliper
-slide caliper and pads off of rotor
-rest caliper on frame or crossmember
-slide rotor straight off of hub (might need a little convincing but if healthy it should slide right off)
**inner wheel bearing and seal should come off with rotor**
-remove seal and inner wheel bearing from rotor
Brake reinstall:
-install inner wheel bearing and seal into new rotor (don't forget to pack the bearings!)
-slide rotor onto spindle until it sets all the way back
-pack and install outer wheel bearing
-reinstall lockout components in reverse order, torque spindle nut(s) to recommended spec (not sure what it is for the auto hub...)
**I recommend swapping to manual lockouts while you have the hubs dissembled**
-coat caliper-to-pad contact points on the pad backing plates with white lithium grease to prevent squeaks (optional)
-compress caliper piston with compression tool (C-clamp will also work but make sure to place the end of the clamp in the CENTER of the piston)
**be careful to watch brake fluid reservoir for overflow. you will most likely need to siphon some fluid out of reservoir because of the displacement cause by new thicker pads**
-insert pads onto caliper
-slide caliper onto rotor
-insert 2 bolts on back of caliper
Put wheels on!
Sorry if I went into more detail about the brake job than you needed. I was bored
ON EDIT: Found an exploded diagram of the Dana 44 stock auto lockout assembly, courtesy of Warn. I added some additional steps to the lockout removal procedure.