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Spoiler warning: this article may contain major plot or ending details.
On the S.S. Anne, Yellow tells Pika that she has gained a lot of confidence lately and is ready to team up with Red when she meets him. Meanwhile, in a lower-class room, the Pokémon Fan Club Chairman excitingly watches a tape of Green's semifinal battle with Dr. O two years previously. In his excitement he recalls how he got the money to board the luxurious ocean liner known as the S.S. Anne. While he recalls this, the Team Rocket Elite Trio attack the engine Room of the S.S. Anne, causing it to start sinking. Yellow and the Pokémon Fan Club Chairman both realize what's going on and head down to the Engine Room to investigate.
The two have a short altercation before the Pokémon Fan Club Chairman realizes that Yellow means no harm. Afterwards Yellow notices a hole in the ship that's letting water in and has her Omanyte freeze it with Ice Beam.
Up on the deck, the Elite Trio reveal themselves and that they want to be promoted by sinking the ship. Yellow and the Pokémon Fan Club Chairman arrive and Yellow challenges the Trio. She sends out her Pokémon and everyone soon believes that they are done for.