In Bomberman 2 DS, players can customize their own Bomberman using an assortment of different body parts with various statistical advantages that are unlocked as you progress through the main story mode in which you solve puzzles and defeat enemies. In multiplayer, up to four players may battle each other using their own customized Bomberman. Bomberman 2 also features the classic arcade style multiplayer mode from Bomberman DS and Bomberman Story DS for up to eight players in LAN and a maximum of four players over Wi-Fi.

Bomberman sets out to save Grid City from a computer virus.