In "Destroy All Monsters", Baragon is seen as one of several monsters kept in captivity on Monster Island. Along with the rest of Earth's monsters, he is brought under the control of an alien race called the Kilaaks during their invasion of Earth and forced to destroy cities in their cause. He later breaks free from this mind control, and watches (but does not actually take part in) the fight against the Kilaaks and their remaining monster, King Ghidorah, before returning to Monster Island with the other Earth monsters.