- The gang's Pre Ass Kicking Oneliner in the English dub.Jaden: (eyes glowing) Paradox, get ready to get your game on!Yusei: (Signer Mark glowing) Your twisted time crusade ends here. Let's rev it up!Yugi: (transformed) I have just one thing to say to you, Paradox. It's time to duel!
- The music using shades of their respective Leitmotifs was pretty cool too.
- Yugi takes down Paradox's Malefic Paradox Dragon with a Combination Attack from his two most iconic monsters. The viewer at this moment probably assumes Paradox is screwed, unless they notice that Paradox still has a face-down card. Said face-down is Sin Paradigm Shift, which allows Paradox to bring forth his ace monster, Malefic Truth Dragon. Cue immediate Oh, Crap! as the Transformation Sequence begins and Paradox goes One-Winged Angel.
- Every hero's turn is accompanied by their leitmotif from their respective series.
- Yugi and Jaden working together to stop Paradox from winning; when Jaden plays The Flute of Summoning Kuriboh to let Yugi get his Kuriboh to his hand, then Yugi discards it to save the rest of their life points from Malefic Stardust Dragon. The way Kuriboh stops the attack stands as the best moment in the whole movie, as Kuriboh awesomely takes one for the team.
- The three main protagonists and their iconic monsters combining their powers together to defeat Paradox and Malefic Truth Dragon.
- In the Japanese version, during Yami Yugi's turn, just to really highlight how awesome he is in comparison to everyone else, they play the song Passionate Duelist.
Awesome / Yu-Gi-Oh!: Bonds Beyond Time