Compete in Duel Runner battles with up to 3 teammates.
Duel Puzzle Editor allows players to post questions and answers via Wi-Fi connection while gaining points and rankings.
Deck Diagnostics offer players the opportunity to have the game evaluate and help build a stronger Deck.
New features for beginner duelists include in game tutorials, Deck structuring tutorials and assistance as well as a "next move" option when a player doesn't know what to do next.
Replay features offer the ability to save a duel once completed so duelists can go back, review and study the last battle to hone their skills and even see the moves the computer made.
Battle anyone, anywhere, anytime via Wi-Fi connection and compete in weekly duel championships each with new rules and live leader boards.
For duels in Crash Town, instead of playing "Rock, Paper, Scissors", the method to who decides to go first will be to press the DS controls on five cards appearing on the touch screen, in order of appearance, before your opponent.
For duels in the Stadium when Turbo Dueling an NPC character, instead of playing "Rock, Paper, Scissors", the method to who decides to go first will be to race the opponent past the first curve of track (just like in anime), winner makes the first turn.
New characters to the World Championship World such as Radley, Malcolm, Nico, West, Ghost, Primo, Lester, Jakob, Hermann, Nicolas, Hans, Harald, Dragan, Brave, Andre, Breo, Sherry LeBlanc, and Jean.
Unlike Stardust Accelerator and Reverse of Arcadia, Over the Nexus includes Turbo Duels and Tag Turbo Duels for Free Duel Mode. Also, the adition of Speed Spell versions of Ritual Spell Cards allows the use of Ritual Monsters in Turbo Duels.
Mini Memory Game system allows the player to have extra cards each time the player defeats a duelist.