If done right and with common sense doing the pinion seal on the truck is OK. On the truck you can not get a reading for bearing preload. Not all seal failures are do to loose bearing, but a good majority are. If caught early and no pitting of the bearing(felt by ruffness when spining the flange, then all sould be OK). If left too loose, or tightened too much then failure is going to happen. Either jack both tire up or have one tire off the ground, rotate the flange and see if any ruffness in the bearing by making slight movements back and forth. You should be able to feel backlash (can be alot in high milage vechicles), but it should not be loose to the point of moving the flange up and down. If it feels gritty when rotating it then you have a problem.
T-case out put bearings are a ball roller type of bearing, they will have some up and down movement and in/out movement. Think about they type of bearing and then think on how much movement you should expect in these directions,some but not alot, Anything over 1/16 to1/8 is probley too much and need some attention.
As to why after a lift, well you are stressing all these areas in different angles, after they have been riding in a pattern for many many miles, now all of a sudden they are being asked to ride in a different patteren, some with less support in these angles. Could also find a shop with Chasis ears and lissen for sounds on these, I have found these to help alot.
Also Ken Romer was chasing a problem in what sound like the front and it ended up to be the rear drive shaft(what a pain that was, not ken, the problem). Sound is a funny tool for chasing down problems, it something is hard to hear where the problem truly is. good luck robbie