The 2006 Autobacs Super GT Series was the fourteenth season of the Japan Automobile Federation Super GT Championship including the All Japan Grand Touring Car Championship (JGTC) era and the second season as the Super GT series. It was also the twenty-fourth season of a JAF-sanctioned sports car racing championship dating back to the All Japan Sports Prototype Championship. The season began on March 19 and ended on November 5, 2006, after 9 races.
Juichi Wakisaka, André Lotterer, and Toyota Team TOM'S won the GT500 drivers' and teams' championships, in the debut season for the new Lexus SC430. Tetsuya Yamano, Hiroyuki Iiri, and RE Amemiya Racing won the GT300 drivers' and teams' championships in their Mazda RX-7. The championship battle was decided on the final lap of the season, with Yamano and Iiri winning the drivers' title on a tiebreaker over Kazuho Takahashi and Hiroki Katoh of Cars Tokai Dream28.
