With the Ancdient Flying Machine revived, the gang take to the skies, only to find the army of Duel Monsters in their way. All seems to be going well until the Ancient Flying Machine's wing is set on fire. It's enough to cripple the machine and force the gang to abandon it. Down below, Kaiba finds a way to escape thanks to Mokuba but they're not out of danger yet. As they pass through a forest, they awaken Cocoons of Evolution, which in turn release Great Moths. Finally, they vanquish the great moths with a combo from Yugi and now face The Big Five themselves and their Mythic Dragon.

Nothing the group Summons is strong enough and they lose friends as a result so Yugi and Kaiba eventually join forces and take down Mythic Dragon before exiting the game.