Right now every bushing that was tightened with the axles hanging are loaded with the weight of the Jeep when it is sitting on the ground. This creates excess wear and tear on the rubber and it is adding some amount of ride height. This added ride height will shift the axles to one side.
With the Jeep on the ground, loosen every bolt with a rubber bushing. There will be a pop as each one returns to a relaxed position. Little by little, the ride height will decrease and the axles will shift back towards where they ought to be.
Once the bind has been released from the bushings, tighten those bolts again and reassess what is going on with the axles when the Jeep is on the ground at it's natural ride height.