Figure out if you have the Corporate 14 bolt rear, or the AAM 11.5 rear. Look at the diff covers here to compare, pretty obvious.
http://www.ringpinion.com/b2c/DiffList.aspx?SearchMode=Make&MakeID=3&ModelID=467&Side=Rear&DriveType=4WD
Replacing just a carrier is not very hard. The hardest/most time consuming part in setting up gears is setting the pinion depth. The pinion won't get screwed with since you're not changing ratios.
Changing the carrier will basically consist of removing the axle shafts(super easy if they are full floating), pull diff cover, use dial indicator to figure out how much backlash exists with gearset(you want to replicate this same number later so the gears aren't wearing on new spots), unbolt carrier and remove(can be a pain in the ass if there is lots of preload but usually not too downright horrible).
If you have the AAM 11.5 it's dead easy as they have threaded adjusters which you use to tighten each side of the carrier, changing how much it is left vs right will move it around left to right to change backlash, increasing both increases preload.
The GM 10.5 14 bolt also has threaded preload adjusters which are awesome.
You swap the ring gear over, and bearings too(or put new ones on, may as well), reset the backlash to spec while making sure preload is sufficient. With shimmed axles, it's pretty damn hard to give too much preload unless you're using a housing spreader(I never use unless ABSOLUTELY needed, it is very easy to wreck a good housing with one used improperly). With the threaded adjusters, basically gauge how much effort it took to undo them in the first place. As long as you're not going apeE36 M3 on them you'll be fine.
edit: Here is a post taken from a D44 regearing how to I did years ago. This is essentially what you'd be doing, except the 14b and the AAM 11.5 both have threaded preload adjusters so it will be 10x easier with no special puller needed for putting bearings on and off.
http://www.jeepforum.com/forum/f19/regearing-marinejrms-xj-d44-992471/#post9095545
Where I'm making shim changes which take 5+min each time.. you're just turning threaded adjusters one way or the other to add preload and/or move the carrier left or right.