The lack of a good analog joystick sucks for many n64 games.
Zelda would be the one I wanted... but the controls are just too different... I could never get it to work.
I have an analog flight stick... but that sucks... I was considering using a super joystick on it, but figured it wasn't worth it yet... maybe if I find another cheap analog stick...
But I don't know if you can hack the original analog stick to any arcade sticks.
Also, n64 emulation is pretty good.... the computer will probably be one of the cheaper parts of your project... So I would go with a computer, and a n64 emulator.