Yugi and friends go to see Professor Holfskin, grandfather of Rebecca and friend of Sugoroku, at Domino Meseum. Professor knows about past life of Yugi as nameliss Pharoah. Also, he is a person who travels around the world and studies about history and archeology especially details about ancient Eygpt of Yugi. Yugi asks him how whatever he found matches the current situation. Professor give Yugi some pictures of carved stone in Duel Monster images. He found them at the temple during his exploation. They represents that Duel Monsters might really exist in the world around 10,000 years ago and also involve with Eygpt 3,000 years ago. Tristan disagrees with him because he believes the Duel Monsters are created by technology of Kaiba Corporation. Anyway, Professor reminds him that the real creater is Pegasus whose inspiration came from the monster tablets in Eygpt. Rebecca is getting furious when her grandfather's theory is rejected. However, Joey strongly believes that opinion because after the battle against a shadow game and god card, he feels the existence of Duel Monsters. Rebecca additionally explains in difficult knowledge. It is hard to believe that such a child like her can understand the Rebecca shocks everybody when she says that she is University student by her genius. Then, Yugi lets Professor see a glowing stone he got from the duel ysterday. Professor feels that it is similar to the glowing stones embeded in the eyes of woman statue found inside the temple. Anyhow, he would like to keep and learn more about it. When he gets any further information, he will let Yugi know. Before leaving the museum, only Yugi hears some girl voice asking for help.
The 3 warriors submits 3 god cards they got to his leader, Dartz who needs power of 3 gods and souls of duelists to awaken the queen.
At that nigt both Yugi are getting so much anxious that they can't sleep. Original Yugi hears the girl voice asking for help again. It comes from the millennium puzzle. Both Yugi get up inside Yugi's maze mind. They together help to find the source of that sund but they get nothing. Suddenly, Kuribo appears in Yugi's mind and leads them to the real door. Behind the door, both of them are brought to the Duel Monster world that is being treatened by giant eye monster. Both Yugi go inside the castle and see the 3 sealed dragons. Then, the owner of voice appears. That is Black Magician Girl. She lets them know that they are in Duel Monster world now being in danger. The evil monster absorbs he friends into itself until there are a few monsters left in the castle. Three dragons, the monsters protecting this world, are also sealed. Only chosen warrior with heart of duelist can unseal them. Thus, both Yugi together help unsealing the dragon by drawing the sword. When the dragon is awaken, it is named by both Yugi as Timaeus. Then, Yugi wakes up and notices that there is an aura appearing on the night sky. He hurries to go into the Domino City with his Duel Disk. The aura is shaping as green crystal and cracking out into a giant monster that Yugi saw in his Duel Monster World. Person who is behind this monster is Dartz. This monster is absorbing the Duel Monsters supposed to come out from Duel Monster Game into itself. Yugi comes to see his friends at Domino City. Anyway, Dartz lets the monster strongly attack to that nameless Pharoah. Anyway, Yugi sees a light going into his deck in duel disk. When he draws that card, it is Timaeus. Thus, he believes that whatever he saw isn't a dream. Yugi summons Timaeus and use it's power attack that strikes Darts back. The evil monster is destroyed into green glowing pieces falling down to the earth.