Yuugi is a shy boy who doesn't really have any friends. When he solves an ancient puzzle, it unleashes an alter ego that takes control of Yuugi when someone hurts him, and challenges them to a game called 'The Yami No Game'
A convict believed to be Tetsu Tasaki escapes from prison, leaving the city in a panic. Yugi Muto and his friends notice Anzu Mazaki has been behaving strange lately. Investigation causes them to get involved with the police search for the convict.
Honda waits in line to get a rare watch for Miho. Later on at an arcade the watch is stolen by Shotaro. Yugi's effort to get it back leads him to the arcade's basement where a Shadow Game begins...
A man from ancient Egypt comes to the museum where he sees Yugi with the Millennium Puzzle. He travels in Yugi's mind to see if the puzzle really belongs to Yugi. In there, Dark Yugi challenges him to a game where the man from Egypt must find the real door which has the Millennium Puzzle in it.
Shadi, the man from Egypt, attacks Yoshimori, and then infiltrates Anzu's room of mind to make her play Yugi right into his hands to play a Shadow Game.
The popularity of Digital Pets leads to a contest, and Honda trains Miho's pet, so they can take the paid trip. Meanwhile, Yugi is worried for his friend Haiyama, who seems to be pressured into some shady business by the bully Kujirada. But all is not what it seems...
Yugi's friends Miho and Warashibe are obsessed with Capsule Monster Chess. After Miho spurns his advances, Warashibe decides to eliminate his competition for her affection.
Game show champion Ryuichi Fuwa (Kaiba's second Game Master) moves to the gang's high school. Although he seems friendly, his tactics have a more sinister plan.
Fraudulent psychic Kokurano has his eyes on Anzu. Though Anzu doesn't believe his predictions at first, her desire to see her mysterious savior leads her right into Kokurano's grasp.
When Anzu realizes that Yugi is her mysterious crush, Anzu invites him on a date to an amusement park, intending to put herself in danger to see Dark Yugi.
Jonouchi has a crush on Miyuki, the nurse taking care of his sister Shizuka. But when a corrupted doctor fires her, Jonouchi can't expose him, or Shizuka will be kicked out of the hospital.
Kaiba's third Game Master, famous model Aileen Rao, challenges Dark Yugi to a game of Raijinhai. Aileen prides herself on taking away the most important things from the ones she defeats...
With Honda's support, Miho enters a popularity contest against arrogant school beauty Kaoruko Himekoji. Soon Kaoruko resorts to cheating, but when she hurts Miho, she incurs the wrath of Dark Yugi.
Yugi and his friends meet Ryou Bakura, a gentle new student with an interest in role-playing games. Little do they know the danger that dwells within him...