Serena, who appeared before the Lancers, suddenly betrays them and captures Yuzu while Yuya is forced to fight Captain Solo. Caught between useless cards and Solo's lock deck, things seem hopeless when more allies suddenly arrive.
Yuya and co board a ship to Duel Academy when Dennis catches up to them, aiming to defeat Yusho once and for all. A still vengeful Kaito meets Dennis's challenge as the two unleash their greatest monsters.
Yuya encounters his old foe from the Junior Youth Championship, Kachidoki. Kachidoki continues to use violent tactics and powerful Fusions in his Action Duels as Yuya tries to return a smile to his heart.
Convincing Edo, the Tyler twins, and the rest of the forces in Heartland to join their side, Yuya and the other Lancers prepare to head to the Fusion Dimension to find their friends and restore everyone who has been turned into a card.
As their duel goes on, Edo only becomes more conflicted of where his allegiances lie. Seeing Edo suffer, Yuya is determined to remind him how fun dueling can be and begins his greatest Dueltaining performance yet.
Academia's enforcer Edo Phoenix challenges Yuya to a rematch. Torn between his allegiance to the Professor and his spirit of Dueltaining, a confused Edo is determined to crush Yuya and the ghost of Yusho that haunts him.
Yuya and the others try to return to the Resistance base when they are attacked by the Obelisk Force. They try to face the power of the Obelisk Force when Shun becomes gravely injured during the battles.
As Sawatari and Gongenzaka both fail to defeat the Tyler sisters, Yuya and Shun arrive to meet their challenge. In the face of their near perfect combo, Yuya must not give into his rage and defeat his powerful foes.
Yuma and Shark turn the tides and put Don Thousand on the brink of defeat, but DonThousand still has a thousand tricks up his sleeve!
Yuya reaches a new place - Heartland City, the hometown of Yuto and Shay in the Xyz Dimension along with Sylvio and Gong. There they meet Duel Academy soldiers and an independent warrior from that dimension.
The Friendship Cup may be over, but trouble sure isn't! Roget is planning to take Zuzu to Duel Academy!
While Luna continues her searches for Regulus in the Spirit World with the help of Torunka, Leo continues his Duel against Devack while managing to Synchro Summon his ace card, "Power Tool Dragon".
While the Signers decide to fight each Dark Signer on their battle ground, Luna is unexpectedly sent to the Duel Monsters Spirit World, leaving Leo to fight Devack in her place.
Yusei and Roman continue their Duel. Roman pushes Yusei to despair, by revealing information about his past and putting his friends in danger.
Yusei and the other Signers visit Martha in Satellite, but Roman interrupts their visit, challenging Yusei to a Shadow Duel.
Crow and Lazar continue their Duel, with Crow still thinking Lazar is a Dark Signer, while the Signers prepare to travel to Satellite to face the Dark Signers.
While the Signers must make their decision to whether or not they must battle the Dark Signers, Crow encounters Lazar in Satellite and challenges him to a Duel.
Rex Goodwin invites the Signers to his home and reveals to them the secret of the Crimson Dragon, as well as the connection between the Signers and the Dark Signers.
Yusei and Akiza's Duel continues. Akiza continues to inflict pain to Yusei. But despite the pain, Yusei is still determined to bring Akiza out of her sorrow.
Akiza Izinski is left in an unconscious state after the attack on the Arcadia Movement. Unable to open Akiza's heart, due to their past treatment of Akiza, her parents ask Yusei Fudo for help.