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Waterfall City is in danger as the Sunstones lose power over the Tyrannosaurus Rex, who attack the city.

Voting is underway to choose the new mayor of Waterfall City, the island's capital. The candidates: Current mayor Waldo wants to stay in office, but he faces stiff competition from Frank Scott. The conflict: Frank invented the automobile, a revolutionary means of transportation that threatens to upend traffic and the peaceful, traditional way of life of Dinotopia.

David is tasked with training a new group of pterosaur pilots, including a recruit named Portia. Romana discovers that Portia cheated on the entrance vision test. David, after initially doubting the discovery, confronts the situation and fires Portia, sparking a negative reaction from his father. The plot also explores the themes of harmony and the secrets of this fantasy world where humans and dinosaurs coexist.

Karl finds a wreck on the beach and uses a radio. He speaks with drifting survivors. Zippo the dinosaur encounters a dog on the beach. Karl and David search for the dog and old items from the outside world, such as hamburgers and cola. The episode explores the dilemma of whether or not to open up to the outside world.

A deadly virus threatens the inhabitants of Dinotopia and the Earthfarm area. The virus is released by LeSage's character. The protagonists Karl and Marion become trapped in a time loop during the night.

Karl's Illness: Karl becomes gravely ill and his life is in danger. Marion's Secret: Marion reveals the existence of a secret portal connecting the island to the outside world. The Mission: David, Rosemary, and Le Sage must travel through the portal to find a medicine that can save Karl. The Journey: The expedition faces unexpected twists and turns along the way.