Xros Heart are forced to fight DarkKnightmon and Kiriha, managing to escape them with Puppetmon's help. Later, Sparrowmon arrives, persuading Taiki to save Nene along telling him DarkKnightmon's intention to form a Darkness Loader for his own sake. Later, DarkKnightmon offering Lilithmon to work together to finish up Xros Heart. Deciding to save Nene, Taiki is stopped by Kihira but Taiki managing to snap him out of DarkKnightmon's control. Kiriha instead team up with Taiki's Shoutmon X4 to battle against DarkKnightmon and his subordinates and Lilithmon with her army of Tankmon. Taiki and Sparrowmon managed to save Nene and returned back to the battle field and soon DigiXros Shoutmon into Shoutmon X5 and they wipe out the Guardromon. Puppetmon later throws a MetalGarurumon DigiMemories at Taiki and he activates it. With Kihira DigiXrossing Cyberdramon with MetalGreymon to give him the Cyber Launcher, Taiki razes the remaining Tankmon. However, though the armies are gone, DarkKnightmon reveals the completed Darkness Loader has form and execute Forced DigiXros with SkullSatamon and SkullGreymon into SuperDarkKnightmon, attempting to use his power to destroy everyone in the Zone but able to stop by Taiki and Kiriha. Later, the Code Crown of Dust Zone appears, leaving it to Puppetmon while Kiriha finally accepts Taiki as his rival and Nene joins Xros Heart. Meanwhile, Bagramon finally shows up physically in front of Tactimon.
Puppetmon gives Taiki the MetalGarurumon Digimemory; in Digimon Adventure, MetalGarurumon is the one who defeated Puppetmon.
Each member of Blue Flare fights their opposite number among Twilight; MetalGreymon fights SkullGreymon (both an evolution of Greymon), Cyberdramon fights SkullSatamon (who also has a staff, wings, and an exposed ribcage), and Deckerdramon fights the Guardromon (who are also mechanical, armored Digimon who shoot missiles).
The animation for Mikey's DigiXros sequence is expanded. It now shows Mikey spinning the wheel on the front of the X Loader, then displays a running bar of silhouettes of Xros Heart's main DigiXros components (Shoutmon, Ballistamon, Dorulumon, Starmon, the Pickmons, Beelzemon, and Sparrowmon), as well as Head-up displays when each Digimon is called out in the DigiXros. (Save Starmon and the Pickmons).