| 1st | 18 | Takashi Kogure / Ryou Michigami | Honda NSX (LA-NA2) | Dome Racing Team | 1:16.9350 |
| 2nd | 17 | Toshihiro Kaneishi / Katsutomo Kaneishi | Honda NSX (LA-NA2) | Real Racing With Leon | 1:17.0330 |
| 3rd | 1 | Ralph Firman / Takuya Izawa | Honda NSX (LA-NA2) | Autobacs Racing Team Aguri | 1:17.2570 |
| 4th | 25 | Takeshi Tsuchiya / Hiroaki Ishiura | Lexus SC430 (UZZ40) | Toyota Team Tsuchiya | 1:16.9730 |
| 5th | 36 | Andre Lotterer / Juichi Wakisaka | Lexus SC430 (UZZ40) | Petronas Toyota Team Tom's | 1:17.2580 |
| 6th | 35 | Tatsuya Kataoka / Peter Dumbreck | Lexus SC430 (UZZ40) | Toyota Team Kraft | 1:17.3650 |
| 7th | 100 | Yuuji Ide / Shin'ya Hosokawa | Honda NSX (LA-NA2) | Team Kunimitsu | 1:17.3370 |
| 8th | 22 | Michael Krumm / Masataka Yanagida | Nissan GT-R | Nismo | 1:16.9970 |
| 9th | 39 | André Couto / Toranosuke Takagi | Lexus SC430 (UZZ40) | Toyota Team Sard | 1:17.4450 |
| 10th | 23 | Satoshi Motoyama / Benoit Tréluyer | Nissan GT-R | Nismo | 1:17.5210 |
| 11th | 6 | Akira Iida / Björn Wirdheim | Lexus SC430 (UZZ40) | Eneos Toyota Team Le Mans | 1:17.6930 |
| 12th | 32 | Loic Duval / Katsuyuki Hiranaka | Honda NSX (LA-NA2) | Nakajima Racing | 1:17.9410 |
| 13th | 24 | Joao Paolo de Oliveira / Seiji Ara | Nissan GT-R | Kondo Racing | 1:18.8210 |
| 14th | 12 | Sébastien Philippe / Dominik Schwager | Nissan GT-R | Team Impul | 1:19.6050 |
| 15th | 3 | Naoki Yokomizo / Ronnie Quintarelli | Nissan GT-R | Hasemi Motorsport | 1:20.4830 |
| 16th | 38 | Yuuji Tachikawa / Richard Lyons | Lexus SC430 (UZZ40) | Toyota Team Cerumo | no time |
| 17th | 19 | Manabu Orido / Tsubasa Abe | Toyota Celica (ZZT231) | Racing Project Bandoh | 1:24.1080 |
| 18th | 43 | Morio Nitta / Shinichi Takagi | ASL Garaiya (GT300VQ) | Autobacs Racing Team Aguri | 1:24.6580 |
| 19th | 11 | Tetsuya Tanaka / Masayuki Ueda | Ferrari F430 (GF-F360) | Jim Gainer | 1:25.0950 |
| 20th | 2 | Hiroki Katou / Kazuho Takahashi | Shiden MC/RT-16 | Cars Tokai Dream28 | 1:24.8040 |
| 21st | 31 | Yuuya Sakamoto / Kyousuke Mineo | Toyota MR-S (GH-ZZW30) | Apr | 1:24.8920 |
| 22nd | 4 | Ryohei Sakaguchi / Masaki Matsushita | Vemac RD320R | Team Uematsu Nova | 1:25.0590 |
| 23rd | 95 | Kouhei Hirate / Keisuke Kunimoto | Toyota MR-S (GH-ZZW30) | Apr | 1:24.8500 |
| 24th | 46 | Kazuki Hoshino / Hironobu Yasuda | Nissan Fairlady Z (Z33) | Mola | 1:25.0360 |
| 25th | 26 | Nobuteru Taniguchi / Shin'ichi Yamaji | Porsche 996 GT3-RS | Team Taisan With Nishizawa | 1:24.8930 |
| 26th | 62 | Haruki Kurosawa / Shinsuke Shibahara | Vemac RD408R | Willcom R&D Sport | 1:25.0230 |
| 27th | 7 | Hiroyuki Iiri / Ryou Orime | Mazda RX-7 (FD3S) | RE Amemiya Racing | 1:25.1240 |
| 28th | 33 | Mitsuhiro Kinoshita / Masami Kageyama | Porsche 997 GT3 RSR | Hankook KTR | 1:25.3230 |
| 29th | 77 | Kota Sasaki / Tetsuya Yamano | Subaru Impreza (GD) | Cusco Racing | 1:25.3560 |
| 30th | 66 | Kouji Yamanishi / Atsushi Yogou | Lamborghini Murcielago RG-1 (GH-BC10E) | JLOC | 1:25.7010 |
| 31st | 52 | Takuya Kurosawa / Takuto Iguchi | Lexus IS350 (GSE21) | Team Takeuchi With Shift | 1:25.8820 |
| 32nd | 70 | Yutaka Yamagishi / Yoshimi Ishibashi | Porsche 996 GT3-RS | Team Gaikokuya | 1:25.9820 |
| 33rd | 5 | Tetsuji Tamanaka / Naoya Yamano | Vemac RD320R | Team Mach | 1:26.1570 |
| 34th | 111 | Tsubasa Kurosawa / Hiroshi Koizumi | Porsche 986 Boxster | Arktech Motorsports | 1:26.2350 |
| 35th | 88 | Hideshi Matsuda / Naohiro Furuya | Lamborghini Gallardo RG-3 | JLOC | 1:26.3980 |
| 36th | 666 | Syougo Suhou / Jun'ichirou Yamashita | Vemac RD320R | Avanzza Rosso | 1:26.6140 |
| 37th | 87 | Hisashi Wada / Muneyuki Kurihara | Lamborghini Gallardo RG-3 | JLOC | 1:27.0810 |
| 38th | 81 | Takayuki Aoki / Tomonobu Fujii | Nissan Fairlady Z (Z33) | Team Daishin | no time |
| 39th | 110 | Hidetoshi Mitsusada / Daisuke Ikeda | Porsche 986 Boxster | Arktech Motorsports | 1:26.7060 |