Does he have a litterbox in his cage? Does it have yummy hay to nibble while he does his business? Our rabbit was very easy, essentially, to train. We put her in her cage when we first got her, and she piddled in one corner. We put the litter box there, and that was pretty much it. We caught her a couple time "marking" something, and loud claps to stop her, then putting her back in her cage for a while, stopped that behavior.

There's no real way to "discipline" a bunny, but clapping your hands very loud twice (Clap! Clap!) immitates a bunny's "danger" thump, and is sure to get his attention.

You should get him checked by a bunny-knowledgable vet, and get him neutered - many male rabbits will "spray" - aka pee - to mark their territory if they're left unneutered. How old is he? How big is he?

Rabbits WILL chew things. Go to http://rabbit.org for how to Bunny-proof a room, or your whole house!
Give him plenty of things that are okay to chew on - dowels (unpainted) are good, some sticks, treats from the pet store designed (and nutritous) for rabbits ... Miss Hoppy loves the seed treats - they are good for gnawing, nibbling - and tasty to eat, too!

Try restricting him to one room at first, maybe keep him in his cage when you aren;t home, and let him out into that one room when you can supervise for a while.

What's his name?