A boy named Shougo Aoyama is too timid to duel, even after obtaining a powerful rare card, "Red-Eyes Black Dragon". Seto Kaiba also learns about Shougo's rare find and organizes a tournament, where attendance is mandatory for those who receive an invitation. Shougo and Yugi Muto are later chased down and roughed up by Kaiba's henchmen from KaibaCorp, with Kaiba's henchmen overpowering both of them and stealing Yugi's Millennium Puzzle. Now Yugi must enter Kaiba's tournament and show Shougo that one can have both the potential and the power to become a true Duelist.
This movie is said to take place sometime after episode 3, but before the Death-T arc (starting in episode 21), as Kaiba only recalls his previous draw with Yugi.
This marks the end of the Toei anime and the last appearance of Miho Nosaka.
Character appearances appear closer to their second series counterparts than they did during the Toei series. Most notably, Seto Kaiba's general appearance is now very similar to his second series appearance, his green hair and gold/light brown eyes being replaced with brown hair and light blue eyes, and Dinosaur Ryuzaki makes an appearance as a contestant dueling against Kaiba, but only for a brief moment while leaving the tournament due to a loss but doesn't speak, Yugi Mutou/Dark Yugi's hair appearing much stiffer and straighter.
The card game is now referred to as Duel Monsters (as it is in the second series) and the cards' backs take on a similar appearance to their second series counterparts.
Anzu has a job now despite the school laws as established in episode 2.
The duel system Kaiba and Yugi use during their duel made its debut during the Duelist Kingdom story arc in both the manga and the second series. The duel itself resembles the duel here in both monsters summoned and specific strategies. Blue-Eyes being summoned to destroy Gaia is identical to a turn in the duel of 1 of the second series and even has the same appearance from behind Yugi as it's being destroyed. The round with the Magical Hats is the same as in the duel of Episodes 9 and 10 of the second series.
During the final turn of the duel between Yugi and Kaiba, after Yugi fuses "Meteor Dragon" with "Red Eyes B. Dragon" to form "Meteor B. Dragon" (3500/2000), Yugi somehow causes Kaiba's "Blue-Eyes White Dragon's 3-Body Connection" (4500/3000) to separate (how this happened is not explained) allowing Yugi to focus his attack on one "Blue-Eyes White Dragon" (3000/2500) which is weaker than "Meteor B. Dragon", allowing Yugi to not only destroy Kaiba's monster but cause enough Life Point damage to win him the duel. If Yugi used "Meteor B. Dragon" to attack "Blue-Eyes White Dragon's 3-Body Connection" directly, it would not have enough attack points to destroy it and instead cause Yugi to lose the duel.