Soon after arriving on Milos Island to find the rare medicinal plants known as Revival Herbs for Driftveil Gym Leader Clay, our heroes, along with island resident Lewis, encountered the Legendary Pokémon Tornadus and Thundurus. The barriers erected to keep them away were destroyed by Team Rocket, and the two Pokémon are now battling ferociously, threatening the island’s existence.
With the help of Lewis and his Gothorita, Iris successfully summons the Legendary Pokémon Landorus, the island’s guardian and the only one who can control Tornadus and Thundurus. But after Landorus appears, Team Rocket shows up! It turns out they destroyed the barriers as part of a plot to capture all three of these powerful Legendary Pokémon! Ash, Iris, and Cilan team up to defeat the villainous trio and free the three legends—but when the three-way battle starts up again, it’s clear that Landorus was seriously injured in the rescue attempt, and Tornadus and Thundurus seem to have the upper hand.
Lewis collects the few Revival Herbs he has left and offers them to Landorus, who is immediately revitalized! With its newfound strength, Landorus finally manages to stop the battle between Tornadus and Thundurus and convince them to work together to restore Milos Island to its pristine condition. Now, Revival Herbs grow quickly in enormous quantities—more than enough to satisfy Clay’s request. It looks like Ash is off to his next Gym battle!
Iris, posing as a shrine maiden, and Lewis's Gothorita manage to summon Landorus to Milos Island. Team Rocket is thrilled with the development, hoping to capture all three of the forces of nature. As Landorus ascends down to everyone, Lewis explains the dire situation with Milos Island, and the conflict with Thundurus and Tornadus. Lewis asks Landorus to help stop the fighting. Looking at the sky, everyone notices flashes of lightning from the battle between the warring forces. Landorus heads directly there, and asks Tornadus and Thundurus to consider their actions. However both refuse, and proceed to attack, but Landorus uses Protect to shield himself. Landorus lashes them both with an Extrasensory attack. Thundurus and Tornadus again retaliate, but Landorus Protects himself and fires a Hyper Beam back. Meanwhile, Team Rocket calls Dr. Zager, and he reveals that he is closing in on their location.
Tornadus, Thundurus, and Landorus continue battling each other, and one of the attacks ends up sending Ash, Iris, Cilan, and Lewis flying. Lewis's Gothorita, and Axew are badly damaged from the blast so everyone rushes them back to the cabin. Thankfully Lewis explains that he does have a Revival Herb which is stored in a jar. Lewis mixes it in a bowl and feeds it to both Axew and Gothorita. Immediately they are both fully healed. Axew and Gothorita make sure that they are both okay.
Everyone heads outside to check how the situation is progressing. Gothorita uses Psyshock to help out. After some more battling between the forces of nature, Landorus again asks them to stop fighting. Suddenly, three beams of light in colors of green, orange, and blue shine down on the Legendary Pokémon and enclose them in impenetrable boxes. The Legendary Pokémon use their attacks to try to break free, but to no avail. With a motto recital, Team Rocket reveals to everyone that they are the ones responsible for destroying the wedges of each of the shrines. Everyone becomes angry upon hearing this, and exclaims that such actions will never be forgiven. Roggenrola, Pansage, and Emolga are brought out to help destroy the boxes to set the Legendary Pokémon free. None of their attacks come close to breaking the boxes. Gothorita tries Shadow Ball, but that doesn't work either. Team Rocket tells them that the boxes are unbreakable. Team Rocket goes inside of their helicopter, and raises the boxes to attach to it. The Pokémon once again use their attacks, but this time on the helicopter itself and end up destroying the controls. Dr. Zager realizes that he has no choice but to release the boxes and the Legendary Pokémon. Team Rocket makes their getaway to avoid the helicopter being destroyed.
After Team Rocket gets away, the Legendary Pokémon continue their fighting. Landorus appears to have hurt himself, and Tornadus and Thundurus take advantage of the situation, attacking him further. They have Landorus cornered and prepare to finish him off. Meanwhile, Lewis had returned to the cabin to retrieve another Revival Herb to bring it to Landorus for healing. Gothorita uses its Psychic powers to send the Revival Herb up to Landorus. Thankfully Landorus received the Revival Herb in time and was able to use Protect against the oncoming attack. Lewis recalls that the ancient legend depicted the exact same scenario to help Landorus. Landorus uses Extrasensory and Hyper Beam on Thundurus and Tornadus, which injures them. Next, Landorus places it stands on them both and tries to convey his feelings to them about calming down and stopping the fighting, while Gothorita does the same thing with its Psychic powers. Thundurus and Tornadus finally calm down.
Sunlight falls upon the land and sea while the Legendary Pokémon begin to revive everything. Tornadus summons rain, Landorus plants the seeds, Thundurus sets fire to them causing the Revival Herb plants to sprout fully, die, and blow away to other areas. The Pokémon repeat this process. After they have finished, Lilligant comes to them to show that she is healthy, while all the other Grass Pokémon appear healthy as well. All of the forest Pokémon return as well, and the sea returns to normal. Lewis thanks the Legendary Pokémon for their help, and they go back to the sky.
With a bag full of Revival Herbs, Ash, Cilan, and Iris board a boat and head back to Driftveil and the Driftveil Gym. They wave goodbye to Lewis as they head off.
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