64 is the best by far, and the 3DS version is the way to play it.
Star Fox Adventures is also a good game. It's way more like a Zelda game than a Star Fox game, but it's still good for what it is.
At the risk of invoking the wrath of the community I also really enjoyed Star Fox Zero. I actually like unique control schemes, and I found this one to be interesting and work well. Because of its reputation you can buy a copy for dirt cheap, so I think it's well worth the 5-10 bucks to give it a try.