Deoxys, a Pokémon from space, has reappeared, putting a barrier around the city and kidnapping people. Rayquaza, a Pokémon that lives in the atmosphere, comes to fight it.

Tells the story (adapted from the short story by O. Henry) about two men who kidnap a mischievous boy and request a large ransom for his return, but they boy turns the tables on his captors.