I think excedy clutch have a decent reputation.
They are a lot cheaper than OEM.
The OEM clutch I took out of my fzj80 was still in decent shape with about 250k/km on it. It was well worn but still had some life left in it, pressure plate seemed good.
If you don't need a heavier duty clutch...
My preference would be remove the gearbox, not the engine.
I'd plan to remove the flywheel and have it ground. It may take some time to find somewhere to grind it, make inquiries before pulling the gearbox.
You can remove the transfer case with the gearbox still in the car to make things...
You-tube. There's nothing you can't learn about on YouTube.
Try searching videos by OTRAMM. Not sure he has anything specifically related, but his videos are outstanding.
Its a pretty generic process whether diesel or petrol engine.
There's lots of threads here with good snippets of info...