The long shaft can only be used on one side only. It simply won't fit on the short side since the carrier crosspin will keep it from going in anymore.

 

Got it figured out now. Cut the bearing off. My last question.

Do i have everything i need to press the bearing on and make this work?

I have the TJ retaining plate on order, the oil seal, and the bearings from advanced auto you linked me to. Am i missing anything?

 

Replace the stubs with D30 studs, they are longer.

Don't forget to weld the holes in the RUBICON retaining plate and then re-drill to match your axle.