The kids go with Shoutmon to his home, Village of Smiles, where they are thrown a party. Soon after Taiki decides to try to leave the Digital World and return home since he accidentally dragged Akari and Zenjirou with him, causing Shoutmon to become upset. The humans and digimon go their separate ways but MadLeomon attacks the kids once more, combining with Orochimon. Shoutmon comes to their rescue and with the help of Taiki to DigiXros, becomes Shoutmon X2 and defeats MadLeomon, causing the evil digimon to retreat. Nene is seen watching Kiriha and Taiki individually, evaluating their fighting skills.

The Village of Smiles is suffering from the threat of the event known as "Day of Rising Ground." The human boy known as Kiriha appears and informs Taiki and the others about what is happening, offering his help but only if Taiki joins his side and serves under him. He mentions something about the "Code Crown" as well. Refused, Kiriha uses DigiXros on MailBirdramon and a Golemon to fight Shoutmon and his friends. However MadLeomon's forces decide to attack the village as well...

The mysterious and beautiful girl known as Nene explains to Taiki and the others about the Code Crown. It is revealed that what they have is but a fragment of a larger piece and that there is a fragment for every Zone. Using the fragment's power to do a Zone Transfer, Taiki's Xros Heart army ends up in the Island Zone, surrounded by a vast ocean. However they quickly find out that this is not an island paradise as the Bagura Army's influence is in this zone as well.

Captured by Neptunemon, Archelomon is forced to give up the whereabouts of the Code Crown. In order to protect the Code Crown, Taiki and the others head into the stomach of a gigantic Digimon, Whamon. There, the group, as well as the Bagura Army, wage battle inside Whamon. Later, they find DigiMemories of legendary digimon under Whamon, and using them, they summoned legendary digimon Leviamon.

Teams Xros Heart and Blue Flare must protect KingWhamon and the Island Zone's Code Crown from Neptunemon's Seadramon army. Taiki realizes that a DigiMemory can only be used once and summons the memory of MarineAngemon to fight off the Seadramon army. They then take on Neptunmon himself....

Team Xros Heart arrives in the Magma Zone where they decide to relax a bit in the hot springs. Their time for relaxation is cut short when SkullMeramon and some Meramon of Bagura Army shows up. Cutemon and Dorulumon comes to their rescue once more and Cutemon reveals that he is looking for his parents. Also it seems that BlueMeramon in the Bagura Army knows Dorulumon...

To prevent AncientVolcamon from destroying the cave and killing the prisoners, Taiki issues a surrender from Team Xros Heart. He then hands over a fake version of his Xros Loader and the gang is lead away to a cell where they hope to find Cutemon's parents. There they plan an escape unknowing that Tactimon has arrived to the Magma Zone, with an unexpected revelation.

Tactimon attacks Team Xros Heart and captures Dorulumon and Taiki, ordering their execution. Meanwhile Nene informs Kiriha of Taiki's capture and he comes to fight Tactimon. While Tactimon is distracted by Mailbirdramon and Kiriha, BlueMeramon helps Taiki and Dorulumon to escape along with the rest of Xros Heart. The group then learns more about Dorulumon's involvement with the Bagura Army while they look for Taiki's Xros Loader.

Arriving in the Lake Zone, Team Xros Heart quickly discovers that the Bagura Army is present thanks to IceDevimon's frozen victims. After rescuing a drowning Knightmon, Taiki and the others are introduced to the ruler of the castle of the Lake Zone: Persiamon. Meanwhile IceDevimon and his troops attack but when they fail and retreat, the general Lilithmon appears to take over. She then reveals the plan to thaw out a frozen powerful and dangerous digimon.