How do you beat Andross at the very end of the game?
Games Guru: In Star Fox Adventures, Andross takes three forms. The first is a bejeweled monster with three vulnerable spots—one over each eye and one on his forehead. Dodge his attacks and shoot those three spots. This will cause Andross to try to hit you with his enormous hands. Shoot his hands.
During his second attack, Andross will try to inhale you. Hit your brakes and do flips to avoid this. When Andross turns to reveal his gems again, this time shoot them with homing projectiles. Once Andross starts trying to inhale you again, Falco will appear to give you some smart bombs. Shoot the smart bombs at Andross as he inhales debris.
Smart bomb-blasted and angry, Andross will now show you his brain. Shoot it. Kill it and you win the game.