Colors are often used as a secondary way to denote Attribute or Faction - Pyrus Bakugan are often red, Aquos Bakugan are often blue, accounting for differences such as Special Treatment Bakugan. During the third Generation of Bakugan, colors became independent from the Clan system, but still remain a system of organizing Bakugan. Each Bakugan in this Generation has an intrinsic Clan they belong to, and can come in a number of different colors. For example, each Nillious belongs to the Dragon Clan, but can be green, red, or potentially other colors.
|Red||Red, Dark Red, Orange, and Yellow.||Every Red Bruiser uses the color scheme of Brown, Tan, Orange, and Yellow. Despite this unique color scheme it uses the same character card border as other Red Bakugan. Every Red Flame has an Orange toy, but nonetheless is considered as a Red Bakugan, and uses the same border.|
|Blue||Blue, Teal, Light-Blue, and White.|
|Green||Lime, Dark Green, Yellow, and Pale-Lime.||Core Green Smoke uses the color scheme of Lime, Red and Orange. Despite this unique color scheme it uses the same character card border as other Green Bakugan.|
|White||White, Dark-Azure, Light-Gray, and Light-Blue.|
|Black/Purple||Black, Dark-Purple, Yellow, and Silver||This Color has been inconsistently referred to as both Black and Purple. It appears to be represented by a Purple circle on Brawler Cards but by a Black box on the checklist.
Black/Purple Bakugan are the only non-Titanium Bakugan to use silver paint.
All Bakugan of these Colors are the main color with metallic blue paint. It is currently unknown if these Colors are treated the same as the primary Colors in game play or not.