I finally found a manual transmission t4r locally last month after looking for about 6 months. 1998 SR5 158k miles with leather, power windows and locks, and a sunroof.
My leather is trashed, too. It's more like an 80% leather, 20% foam. So, I wouldn't get too hung up for looking for a leather one... you'll probably be re-covering it either way.
Right after I bought mine, there was an ever better one that was available locally for a great price. Isn't that the way it always is? But, there hasn't been one since.
Keep looking, don't pay for one of these $10k 4runners, and be ready to pounce on it when you find it.