HA!! I told you it was a single mass flywheel. People really should learn to listen to me. [fake]
How'd you end up getting the transmission out?
You shouldn't have to replace the flywheel bolts. Who told you that? Just be sure you torque them to the proper specs when you put them back in.
No idea about the rear main seal. I'm always leery about replacing seals like these when they aren't leaking. I replaced the rear main seal on my Camaro when I pulled the engine to do a cam swap just because it was easy to do at that point, and now it leaks like crazy. Would have been better off just leaving it alone. If you do replace it, make sure that everything is perfectly clean and make sure you lubricate the surface of the seal that rides on the crank.
Here's what mjbst111 posted (to your own previous thread, mind you - geez [read] ) about how to get a pilot bearing out without a puller:
As far as that pilot bearing goes... Instead of getting a puller, (I didn't know where to get one) i did this:
Get a long bolt that has a hex head on it just small enough to make it through the pilot bearing. Once the bolt head is behind the bearing, slide a nail in beside the bolt head so that the bolt head cannot come back out.
Get a piece of metal with a hole in it for the bolt to go through and put a nut on the bolt on the other side of the metal. The piece of metal should rest against something and when you turn the nut it will pull on the bolt pulling the pilot bearing out.
The bolt head cannot turn because the nail prevents it from turning thus has nowhere else to go other than to pull out the bearing.
You can probably find these things around the house. I did, it was free and it worked for me.