Back to Duel - S2-E1
Continuity mistake: When Aster draws the "bad card" from his deck, the card is at an upright angle. The next shot, when Jaden tells him he might want to work on that poker face, the card never changes position. When it cuts back to Aster, the card is suddenly held at a rotated angle. (00:11:14)
Back to Duel - S2-E1
Continuity mistake: On Jaden's first turn, there are five cards in his left hand. In the close-up shot, Elemental Hero Sparkman is the fifth card on the right-hand side. Jaden then picks up the third card from the middle, which is then revealed to be Sparkman, even though it was on the end of the row in the previous shot. (00:05:09)
Duel and Unusual Punishment - S1-E7
Other mistake: When Syrus activates Polymerization to fuse together Steamroid and Gyroid, he pulls out the two monster cards and raises them in the air. However, Patroid is shown instead of Steamroid. (00:14:15)
Graduation Match: Part 2 - S1-E52
Plot hole: When Zane has Cyber End Dragon attack Rampart Blaster, Jaden activates De-Fusion, allowing Rampart Blaster to be sent back to his deck (and allowing Burstinatrix and Clayman to come back to the field). Later, when Jaden summons Shining Flare Wingman, he states that it will gain 300 points for each Elemental Hero in his graveyard. We are then shown eight Elemental Heroes in his graveyard, including Rampart Blaster, but this card was never sent to the graveyard, it was sent back to his deck. (00:09:13 - 00:14:43)
Graduation Match: Part 1 - S1-E51
Other mistake: Zane activates the spell card Future Fusion. With this card, he is able to send three Cyber Dragons from his deck to the graveyard and summon the Fusion monster Cyber End Dragon to the field. However, this is not how Future Fusion works. When this card is activated, the player must wait two turns until the Fusion monster is summoned, it can't be summoned on the turn that it is used. (00:17:15)
Amnael's Endgame: Part 1 - S1-E45
Other mistake: When Jaden places Elemental Hero Burstinatrix on his duel disk, the Elemental Hero Bubbleman card can be seen next to it. Bubbleman is shown to have 700 attack points listed on the card, even though this card is shown to have 800 attack points every time it is used in the series. (00:16:55)
Plot hole: Bastion uses the special ability of Hydrogeddon, where he is able to summon another Hydrogeddon from his deck. He summons this monster by drawing the first card from the top of his deck, but there would have been no way for him to know if the card on top of his deck was a Hydrogeddon card. (00:12:35)
Graduation Match: Part 1 - S1-E51
Continuity mistake: After the duel has started, Jaden and Zane draw five cards from their deck, and it then cuts to a shot from behind Zane where it pans over to show Jaden in the background. In this shot, Jaden's left hand is lowered, but when the shot cuts to an angle behind Jaden, his left hand is raised. (00:06:48)
The Seventh Shadow Rider - S1-E44
Continuity mistake: After Professor Crowler's science experiment goes wrong, he starts shouting and it cuts to a shot of the students laughing. In this shot, Alexis and two other Obelisk Blue students can be seen behind Jaden, Syrus and Chumley laughing. Then it cuts to a shot focusing on Jaden and Syrus, and Alexis and the other students behind them have disappeared. (00:03:39)
Other mistake: When Jaden summons Elemental Hero Clayman, the card is shaded orange. Cards with special abilities are shaded orange, but Clayman does not have any abilities, so he should be shaded yellow. (00:16:18)
Doomsday Duel: Part 2 - S1-E30
Other mistake: Jaden activates the spell card Silent Doom and summons Elemental Hero Sparkman to the field in defence mode. He then activates the field spell Fusion Gate, but when he goes to insert the card into his duel disk, Sparkman is shown at a portrait angle on the duel disk, indicating that it is in attack mode instead of defence mode. (00:06:36)
Other mistake: When Jaden has Elemental Hero Wildheart attack Chazz directly, Chazz's life points go down to 2100. Chazz's life point count remains this way for a large chunk of the duel, but when Elemental Hero Flame Wingman destroys Armed Dragon LV7, Chazz's life point count is 2800. Technically speaking, Chazz does lose the correct number of life points since his go down to 1600 and there was a 500-point difference between the two monsters, but his life points shouldn't have been listed as 2800. (00:05:44 - 00:15:15)
Continuity mistake: When Zane hands the hairclip back to Blair after the duel, he places it in her right hand. In the next shot, she is holding it with both hands. (00:18:08)
Continuity mistake: When the hairclip falls out of Blair's hair, it lands on the floor. Next to it is a spell card lying against the side of Zane's bed. Later in the scene, when Zane looks at the hairclip on the floor, the card next to the bed has disappeared. (00:04:40 - 00:05:27)
The King of the Copycats: Part 1 - S1-E18
Continuity mistake: After Dimitri has beaten Syrus with Yugi's deck, there is a shot where he says "It's good to be the King of Games", he has his right hand scrunched into a fist. When the shot cuts, his right hand is suddenly free and not making a fist. (00:09:33)
Continuity mistake: When Jaden and Syrus run up to Chumley on the cliffside, they stop standing under the shadows from a tree. When the shot cuts, they have jumped a few meters, now standing in the sunlight, right behind Chumley. (00:19:38)
Continuity mistake: After Chumley realises the water is shallow, Jaden and Syrus remerge after the raft Syrus builds fall apart. In the shot of them standing up, the log closest to Jaden has a rope wrapped around it twice. When it cuts to a closer shot of Jaden and Syrus, the log next to him only has the rope wrapped around it once. (00:07:57)
Duel and Unusual Punishment - S1-E7
Continuity mistake: After Chumley returns from Chancellor Shephard's office, in the shot where Jaden says "Well, you did lead us to the cafeteria", Jaden is holding six cards in his hand. The cards are side-by-side, with each card on top of the other. But in the next shot, the second card is suddenly under the first card. He also loses one of the cards in between shots, with there being six cards in the first shot, then five in the next. (00:05:00)
Other mistake: When Jaden realises his arm is fading away, the Elemental Hero Clayman card shown on his duel disk is shaded orange. It should be shaded yellow, as it is not an effect monster, and effect monsters are shaded yellow. The same mistake occurs around a minute when the Shadow Duelist says, "It's your move, but make it count, it may be your last." (00:17:28 - 00:18:22)
Revealing mistake: After the Shadow Duelist has activated the effect of Terrorking Archfiend and the flame has landed on the ball labelled 2, just as he says, "Mirror Gate is shattered", the card shown on his duel disk is misshapen, where two corners of the card are curved, instead of being straight. (00:16:23)