The Kingdom of the People of the Vale once ruled over the land, but now all that remains is the Sword of the Vale. in the city of Eindoak. Ash, Iris, and Cilan arrive in Eindoak during a harvest festival's Pokémon Tournament and meet the legendary Pokémon Victini who wishes to share its powers of victory to someone. Elsewhere in the city, a descendant of the People of the Vale named Damon has arrived who seeks to revive the kingdom's power with the Sword of the Vale, bringing them back into power over the land, and Ash and his friends must stop him before he destroys the land along with Victini.

In the legendary past, before Poké Balls were made; an aura-guiding hero Pokémon named Lucario sensed two groups of armies about to clash, and a threat of a massive war in front of Cameron Palace in Kanto that would leave no survivors. He transferred this message to his master, the legendary hero Sir Aaron, while he was being attacked by a violent group of Houndoom. During the battle, his sense of sight was lost and he was rendered unable to see. He used the detection of his Aura, and so with the offensive Aura Sphere, he eliminated them. Though by the threat, the queen of Cameroon, Lady Rin was resolute to die with her civilians, and so Sir Aaron made a choice.

A comet bearing a deadly Pokemon creature crash-lands onto Earth, terrorising a nearby high-tech city, where Ash, Pikachu and friends are currently visiting...

Ash, Pikachu and his friends try and stop a pair of thieves hiding out in the canals and alleyways of Alto Mare, the age-old water capital. Joining the adventure are two new legendary Pokémon, a pair of siblings named Latias and Latios, who serve as peacekeepers and protectors of the Soul Dew - a priceless treasure with a mysterious power.