The game's story follows that of The Legend of Zelda: The Wind Waker, and focuses on Link as he journeys to save his friend Tetra from the story's antagonist, Bellum. With the help of Captain Linebeck and his ship, the S. S. Linebeck, Link sets out to find the Phantom Hourglass, and uses it to find the Spirits of Courage, Wisdom, and Power. After learning that the only way to defeat Bellum is with the Phantom Sword, Link travels across islands to find three pure metals, and forges them into the sword used to finally defeat Bellum and save Tetra.
A young woman meets a young man. Both have lost everything because of the war. Tome Kano, a barmaid, lost everything during the war. Katsuya Ranzaki, a wealthy investor, lost everything for not going to war. The two are fed up with their lives and want to live "real lives" for once. Katsuya's starting up an all-girls baseball team with Tome on it allows them to do this. In This dramatic story, the dreams of a nation come alive. Through the determination and strength of Katsuya and Tome, girls baseball becomes a sensation, and Tome a superstar.