| 1st | 23 | Satoshi Motoyama / Michael Krumm | Nissan Skyline GT-R (BNR34) | NISMO | 1:24.6700 |
| 2nd | 38 | Hironori Takeuchi / Yuuji Tachikawa | Toyota Supra (JZA80) | Toyota Team Cerumo | 1:24.9440 |
| 3rd | 16 | Daisuke Itou / Tom Coronel | Honda NSX (LA-NA2) | Mugen | 1:25.3420 |
| 4th | 1 | Juichi Wakisaka / Akira Iida | Toyota Supra (JZA80) | Esso Toyota Team Le Mans | 1:25.3720 |
| 5th | 18 | Ryou Michigami / Sébastien Philippe | Honda NSX (LA-NA2) | Dome Racing Team | 1:25.6730 |
| 6th | 25 | Seiji Ara / Jeremie Dufour | Toyota Supra (JZA80) | Team Advan Tsuchiya | 1:25.7130 |
| 7th | 36 | Takeshi Tsuchiya / Erik Comas | Toyota Supra (JZA80) | Toyota Team Tom's | 1:26.1020 |
| 8th | 39 | Dominik Schwager / Manabu Orido | Toyota Supra (JZA80) | Toyota Team SARD | 1:26.3390 |
| 9th | 64 | Tsugio Matsuda / Takashi Kogure | Honda NSX (LA-NA2) | Mobil1 Nakajima Racing | 1:26.5080 |
| 10th | 100 | Hiroki Katou / Hidetoshi Mitsusada | Honda NSX (LA-NA2) | Team Kunimitsu With Mooncraft | 1:26.5620 |
| 11th | 12 | Benoit Tréluyer / Yuuji Ide | Nissan Skyline GT-R (BNR34) | Team Impul | 1:26.8410 |
| 12th | 35 | Naoki Hattori / Shigekazu Wakisaka | Toyota Supra (JZA80) | KRAFT | 1:27.0960 |
| 13th | 22 | Masami Kageyama / Richard Lyons | Nissan Skyline GT-R (BNR34) | NISMO | 1:27.1500 |
| 14th | 8 | Keiichi Tsuchiya / Toshihiro Kaneishi | Honda NSX (LA-NA2) | Autobacs Racing Team Aguri | 1:27.2690 |
| 15th | 37 | Takuya Kurosawa / Marco Apicella | Toyota Supra (JZA80) | Toyota Team Tom's | 1:27.3440 |
| 16th | 76 | Yuudai Igarashi / Eiichi Tajima | McLaren F1 GTR (4S70) | Hitotsuyama Racing | 1:27.4070 |
| 17th | 88 | Naohiro Furuya / Hisashi Wada | Lamborghini Diablo (ZA90DE068) | JLOC | 1:32.2040 |
| 18th | 24 | Atsushi Yogou / Akihiko Asai | Porsche 996 GT3-R | Team Taisan Jr. | 1:32.4310 |
| 19th | 31 | Kota Sasaki / Satoru Gotou | Toyota MR-S (GH-ZZW30) | Team Reckless | 1:32.4500 |
| 20th | 3 | Mitsuhiro Kinoshita / Masataka Yanagida | Nissan Fairlady Z (Z33) | Hasemi Motorsports | 1:32.9440 |
| 21st | 26 | Shin'ichi Yamaji / Kazuyuki Nishizawa | Porsche 996 GT3-R | Team Taisan Advan | 1:33.0570 |
| 22nd | 43 | Morio Nitta / Shinichi Takagi | ASL Garaiya | Autobacs Racing Team Aguri | 1:33.0730 |
| 23rd | 2 | Kazuho Takahashi / Akira Watanabe | Honda NSX (GH-NA2) | Verno Tokai Dream 28 | 1:33.2120 |
| 24th | 81 | Kazuki Hoshino / Tadao Uematsu | Nissan Silvia (S15) | Team Daishin | 1:33.2570 |
| 25th | 7 | Nobuteru Taniguchi / Takashi Ooi | Mazda RX-7 (FD3S) | RE Amemiya Racing | 1:33.4140 |
| 26th | 71 | Masaki Jounai / Keita Sawa | Toyota MR-S (GH-ZZW30) | Sigmatech Racing Team | 1:33.4820 |
| 27th | 77 | Katsuo Kobayashi / Tatsuya Tanigawa | Subaru Impreza (GDB) | Cusco Racing | 1:33.6730 |
| 28th | 19 | Takayuki Aoki / Minoru Tanaka | Toyota MR-S (GH-ZZW30) | Racing Project Bandoh | 1:33.6810 |
| 29th | 55 | Eiji Yamada / Takayuki Kinoshita | Chrysler Viper GTS-R | Team Taisan Advan | 1:34.3760 |
| 30th | 17 | Masahiro Matsunaga / Masaoki Nagashima | Toyota MR-S (GH-ZZW30) | Tom's Spirit | 1:34.3910 |
| 31st | 34 | Seigou Nishizawa / Kouji Matsuda | Toyota MR-S (GH-ZZW30) | Dentaire Projet Racing With Apr | 1:34.6700 |
| 32nd | 69 | Masaru Yamagishi / Kei Itaka | Porsche 996 GT3-R | Team Gaikokuya | 1:34.9950 |
| 33rd | 910 | Akira Hirakawa / Yasuo Miyagawa | Porsche 996 GT3-R | 910 Racing | 1:35.2230 |
| 34th | 15 | Genji Hashimoto / Charles Kwan | BMW M3 GT (E46) | Amprex Motorsport | 1:35.3500 |
| 35th | 51 | Naofumi Omoto / Adam Wilcox | Nissan Silvia (S15) | Auto Staff Racing Team | 1:35.4100 |
| 36th | 5 | Tetsuji Tamanaka / Yasutaka Hinoi | Vemac RD320R | Team B-1 | 1:35.8710 |
| 37th | 9 | Ichijou Suga / Katsuhiko Tsutsui | Mosler MT900R | A&S Racing | 1:36.0330 |
| 38th | 70 | Yoshimi Ishibashi / Gou Shimizu | Porsche 996 GT3-R | Team Gaikokuya | 1:37.1540 |
| 39th | 11 | Hideshi Matsuda / Tetsuya Tanaka | Ferrari 360 Modena (GF-F360) | Team Gainer | 1:37.9930 |
| 40th | 10 | "Osamu" / Shin'ichi Kurashima | RGS Mirage GT-1 | Team LeyJun | 1:38.6530 |
| 41st | 21 | Mikio Hitotsuyama / Takeshi Namekawa | BMW M3 GT (E46) | Hitotsuyama Racing | 1:38.8790 |