Why do you want to swap in another? The late model D35 in the early YJs were not a c-clip design. They are a flange style axle. Are you breaking the shafts?
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I am running 35s and keep hearing that I am bound to break an axel shaft. It has held up for now but I would like to be safe.
How long have you been wheeling with the 35's? If you want to be safe, bring the capability to change out a broken shaft while on the trail. Practice in the driveway so that you know what is entailed.
For an easy rear axle swap for the YJ, you'll need a near matching wms, same lug pattern (5on4.5) to keep same wheels, and matching r&p. Keeping the lead suspension is easy to swap in but just placing the leak pad in the correct spot and welding it in. Shock mounts, the same. Only the difficult aspect would be the ds. You might have to swap a different joint in, shorten or lengthen the tube, etc.
Vehicles fitting most of these requirements are the XJ/MJ/ZJ, and Explorers. XJ/MJ/ZJ will either have a D35, D44 or 8.25. The D35 is not what you want. THe D44 is a flange style axle meaning no c-clips, and the 8.25 is another c-clip axle. All have drum brakes except the D35 from the ZJ. Explorers will have an 8.8. Early models will be drum, late model (95-up) will have discs. The 8.8 is 1"+ narrower than the YJ wms. Spacers are available if you want to match width. Depending on wheel offset if may not be necessary. 8.8 requires a flange to adapt the ds to the yoke. You probably won't find a matching r&p with the 8.8, but you could with the Jeeps. Costs range drastically, but 8.8's in range of $200-350. Jeeps $250-400. Look at
http://car-part.com/ for something in a yard. However, check out your local Jeep forum as someone may have something for sale. Hope this info helps.
Now, if you plan to add a locker, and have added a r&p to the front, getting something that you will be adding a locker and r&p anyways, I suggest the 8.8 or the D44. 8.8 plus is the discs. I just added a 8.8 into my 97 TJ because I did break a D35 axle in what I thought was rediculous. I had to add 4.88 and LR so I got a cheap 99 Explorer 8.8 with 3.27s. I hope the 3.27's could be resold. For the ds, I didn't need anything other than the flange (2-2-1379) for the 1330 joint.