The 2006 Formula Nippon Championship was contested over nine rounds, with twelve teams and 25 drivers competing in the championship. The specification chassis was the LolaFN06. After eight seasons of a specification engine, there was a competition between engine manufacturers, as teams could choose between Toyota and Honda 3000cc Indy Racing League style specification normally aspirated engines.
‡ Because of heavy rain at Fuji during the race, the event ended after two laps. Half points were awarded because of the stoppage before the 75% point.