I'd replace the bearings if it we mine. The seals are easy, I use the axle or big chanel locks, whatever is around. Yep, just pry them out.
The bearings have to be pulled with a slide hammer and attacment, Auto Zone has one you can use.
I drive the bearings in with a big socket, and the seals with a wood block. I pack the bearings with grease and grease the seals.
A side note, that pin comes out easier if you put some heat on the carrier right where the threaded part of pin is. They usually have thread locker on them. On that note, put some blue thread locker on it when you put it back in, and don't over tighten it. You may be the next guy to take it out.
Rather than counting threads, the way I would put the yoke back on, if you were replacing the pinion seal, is to measure the torque in inch pounds it takes to rotate the pinion before disassembly, with just the pinion in the housing, replace the seal, reassemble, and tighten the nut until the measured resistance, in inch pounds of torque, is the same as before disassembly.
This is called setting the pinion bearing preload, and I would prolly replace the crush sleeve just to be safe if you have any doubts. It should be around 12 inch lbs IIRC.
This is how I do it, may not work for you, I have done it several times on 10 bolt Astro vans and Ford 8.8" axles.
Be careful when setting the preload, as once it starts to get tight, it takes only a fraction of a turn to make a major change.