| 17 | Koudai Tsukakoshi / Toshihiro Kaneishi | Honda NSX Concept-GT (NSX-P) | Keihin Real Racing | 1:37.3060 |
| 23 | Tsugio Matsuda / Ronnie Quintarelli | Nissan GT-R (R35) | NISMO | 1:37.6360 |
| 8 | Vitantonio Liuzzi / Kousuke Matsuura | Honda NSX Concept-GT (NSX-P) | Autobacs Racing Team Aguri | 1:37.8220 |
| 100 | Takashi Kogure / Hideki Mutou | Honda NSX Concept-GT (NSX-P) | Team Kunimitsu | 1:37.8570 |
| 39 | Hiroaki Ishiura / Oliver Jarvis | Lexus RC F | Lexus Team Sard | 1:38.1510 |
| 61 | Kota Sasaki / Takuto Iguchi | Subaru BRZ GT300 (DBA-ZC6) | R&D Sport | 1:38.2560 |
| 31 | Morio Nitta / Kouki Saga | Toyota Prius (ZVW30) | Apr | 1:38.4140 |
| 0 | Yuuki Nakayama / Tomoki Nojiri | Honda CR-Z (ZF2) | Team Mugen | 1:38.6410 |
| 18 | Naoki Yamamoto / Frédéric Makowiecki | Honda NSX Concept-GT (NSX-P) | weider Modulo Dome Racing | 1:38.7230 |
| 55 | Shinichi Takagi / Takashi Kobayashi | Honda CR-Z (ZF2) | Autobacs Racing Team Aguri | 1:38.7330 |
| 3 | Kazuki Hoshino / Lucas Ordoñez | Nissan GT-R Nismo GT3 (R35) | NDDP Racing | 1:38.9710 |
| 30 | Yuuki Iwasaki / Masami Kageyama | Nissan GT-R Nismo GT3 (R35) | Apr | 1:39.1360 |
| 4 | Nobuteru Taniguchi / Tatsuya Kataoka | BMW Z4 GT3 (E89) | GSR & Studie With Team Ukyo | 1:39.2930 |
| 7 | Seiji Ara / Jörg Müller | BMW Z4 GT3 (E89) | BMW Sports Trophy Team Studie | 1:39.3340 |
| 36 | Kazuki Nakajima / James Rossiter | Lexus RC F | Lexus Team Petronas Tom's | 1:39.3820 |
| 86 | Shin'ya Hosokawa / Kouji Yamanishi | Lamborghini Gallardo GT3 (09-7) | JLOC | 1:39.3920 |
| 2 | Kazuho Takahashi / Hiroki Katou | McLaren MP4-12C GT3 | Cars Tokai Dream28 | 1:39.5380 |
| 65 | Haruki Kurosawa / Tsubasa Kurosawa | Mercedes-Benz SLS AMG GT3 | Leon Racing | 1:39.6560 |
| 10 | Masayuki Ueda / Hideki Yamauchi | Mercedes-Benz SLS AMG GT3 | Gainer | 1:40.0880 |
| 360 | Atsushi Tanaka / Hiroki Yoshida | Nissan GT-R Nismo GT3 (R35) | Tomei Sports | 1:40.6670 |
| 24 | Michael Krumm / Daiki Sasaki | Nissan GT-R (R35) | Kondo Racing | 1:42.5150 |