| 1st | 38 | Yuuji Tachikawa / Kouhei Hirate | Lexus SC430 (UZZ40) | Lexus Team Zent Cerumo | 1:22.5720 |
| 2nd | 100 | Takuya Izawa / Naoki Yamamoto | Honda HSV-010 GT (H010) | Team Kunimitsu | 1:22.5880 |
| 3rd | 36 | Loic Duval / Kazuki Nakajima | Lexus SC430 (UZZ40) | Lexus Team Petronas Tom's | 1:22.7050 |
| 4th | 23 | Satoshi Motoyama / Michael Krumm | Nissan GT-R (R35) | Nismo | 1:22.9650 |
| 5th | 1 | Masataka Yanagida / Ronnie Quintarelli | Nissan GT-R (R35) | Mola | 1:23.0270 |
| 6th | 18 | Takashi Kogure / Carlo van Dam | Honda HSV-010 GT (H010) | Weider Honda Racing | 1:23.4640 |
| 7th | 8 | Ralph Firman / Takashi Kobayashi | Honda HSV-010 GT (H010) | Autobacs Racing Team Aguri | 1:23.5370 |
| 8th | 19 | Seiji Ara / André Couto | Lexus SC430 (UZZ40) | Lexus Team WedsSport Bandoh | 1:28.3430 |
| 9th | 6 | Daisuke Itou / Kazuya Oshima | Lexus SC430 (UZZ40) | Lexus Team Le Mans Eneos | 1:31.3700 |
| 10th | 32 | Ryou Michigami / Yuuki Nakayama | Honda HSV-010 GT (H010) | Nakajima Racing | 1:30.2120 |
| 11th | 12 | Tsugio Matsuda / Joao Paolo de Oliveira | Nissan GT-R (R35) | Team Impul | 1:31.2180 |
| 12th | 39 | Juichi Wakisaka / Hiroaki Ishiura | Lexus SC430 (UZZ40) | Lexus Team Sard | 1:32.6240 |
| 13th | 17 | Toshihiro Kaneishi / Koudai Tsukakoshi | Honda HSV-010 GT (H010) | Keihin Real Racing | 1:32.8810 |
| 14th | 24 | Hironobu Yasuda / Björn Wirdheim | Nissan GT-R (R35) | Kondo Racing | 1:35.1060 |
| 15th | 35 | Yuuji Kunimoto / Andrea Caldarelli | Lexus SC430 (UZZ40) | Lexus Team KeePer Kraft | no time |
| 17th | 911 | Kyousuke Mineo / Naoki Yokomizo | Porsche 997 GT3 R | Team Taisan Endless | 1:28.9750 |
| 18th | 33 | Masami Kageyama / Tomonobu Fujii | Porsche 997 GT3 R | Hankook KTR | 1:29.1220 |
| 19th | 11 | Tetsuya Tanaka / Katsuyuki Hiranaka | Audi R8 LMS ultra (AS42AOFGT3) | Gainer | 1:29.2850 |
| 20th | 87 | Kouji Yamanishi / Hideki Yamauchi | Lamborghini Gallardo LP600+ GT3 (09-7) | JLOC | 1:29.3230 |
| 21st | 88 | Manabu Orido / Takayuki Aoki | Lamborghini Gallardo LP600+ GT3 (09-7) | JLOC | 1:29.6660 |
| 22nd | 31 | Morio Nitta / Kouki Saga | Toyota Prius (ZVW30) | Apr | 1:29.6770 |
| 23rd | 0 | Nobuteru Taniguchi / Tatsuya Kataoka | BMW Z4 GT3 (E89) | GSR & Studie With Team Ukyo | 1:30.0430 |
| 24th | 61 | Tetsuya Yamano / Kota Sasaki | Subaru BRZ GT300 (DBA-ZC6) | R&D Sport | 1:30.0890 |
| 25th | 3 | Yuuhi Sekiguchi / Katsumasa Chiyo | Nissan GT-R Nismo GT3 (R35) | NDDP Racing | 1:30.1280 |
| 26th | 52 | Hironori Takeuchi / Haruki Kurosawa | Mercedes-Benz SLS AMG GT3 | Green Tec & Leon With Shift | 1:31.8240 |
| 27th | 66 | Hiroki Yoshimoto / Kazuki Hoshino | Aston Martin V8 Vantage GT2 | A Speed | 1:32.6160 |
| 28th | 21 | Akihiro Tsuduki / Cyndie Allemann | Audi R8 LMS | Hitotsuyama Racing | 1:33.3360 |
| 29th | 43 | Shinichi Takagi / Kousuke Matsuura | ASL Garaiya (GT300VQ) | Autobacs Racing Team Aguri | 1:31.5510 |
| 30th | 15 | Tim Bergmeister / Takeshi Tsuchiya | Porsche 997 GT3 R | Team ART Taste | 1:31.1410 |
| 31st | 85 | Yuuya Sakamoto / Masaki Kano | Lamborghini Gallardo RG-3 (ZHWGE) | JLOC | 1:33.6290 |
| 32nd | 86 | Jun'ichirou Yamashita / Hideshi Matsuda | Lamborghini Gallardo RG-3 (ZHWGE) | JLOC | 1:34.2010 |
| 33rd | 30 | Yuuki Iwasaki / Yuuya Sakamoto | Audi R8 LMS ultra (ABA-42BYHF) | Apr | 1:34.2560 |
| 34th | 22 | Hisashi Wada / Masaki Jounai | Vemac RD320R | R'Qs Motorsports | 1:34.2620 |
| 35th | 27 | Yutaka Yamagishi / Takuto Iguchi | Ferrari F430 GTC | LMP Motorsport | 1:34.5540 |
| 36th | 5 | Tetsuji Tamanaka / Masayuki Ueda | Ferrari 458 Italia GT3 | Team Mach | 1:35.0760 |
| 37th | 48 | Hiroshi Takamori / Shogo Mitsuyama | Callaway Corvette Z06R GT3 | Dijon Racing | 1:36.1940 |
| 38th | 4 | Taku Bamba / Masahiro Sasaki | BMW Z4 GT3 (E89) | GSR & Studie With Team Ukyo | 1:37.7710 |
| 39th | 2 | Kazuho Takahashi / Hiroki Katou | Shiden MC/RT-16 | Cars Tokai Dream28 | 1:43.9380 |
| 40th | 20 | Michael Kim / Hideki Noda | Audi R8 LMS | Hitotsuyama Racing | 1:45.1990 |
| 41st | 360 | Atsushi Tanaka / Yasushi Kikuchi | Callaway Corvette Z06R GT3 | Tomei Sports | no time |