

Initially they work for Emperor Haysheen, but Marthis, Kaiba's 'helper', hears Kaiba talking to Pegasus and suspects that Kaiba is a spy for the resistance. Kaiba's storyline features Seto Kaiba and his brother Mokuba Kaiba, who are also trapped in the game. Along the way, the players faces Joey, Tea and Yami Bakura.

When they enter the game they soon find themselves trapped within it, and they must summon the help of the game's characters and monsters in order to defeat the game's villain, Emperor Haysheen and ultimately stop the plans of the game's designer, Scott Irvine, to control the three Egyptian God cards. The Yugi storyline involves Yugi, Joey, Tristan, Téa and Bakura being invited to the testing of the virtual reality game "Kingdom," created by the company SIC. Seto Kaiba and Yugi Muto, but later the player can get one for Joey Wheeler as well. At first the player can choose between two storylines.
