| 23 | Masataka Yanagida / Ronnie Quintarelli | Nissan GT-R (R35) | Nismo | 1:52.1570 |
| 18 | Naoki Yamamoto / Frédéric Makowiecki | Honda HSV-010 GT (H010) | weider Modulo Dome Racing | 1:52.3590 |
| 36 | Kazuki Nakajima / James Rossiter | Lexus SC430 (UZZ40) | Lexus Team Petronas Tom's | 1:52.4400 |
| 38 | Yuuji Tachikawa / Kouhei Hirate | Lexus SC430 (UZZ40) | Lexas Team Zent Cerumo | 1:52.5590 |
| 6 | Kazuya Oshima / Yuuji Kunimoto | Lexus SC430 (UZZ40) | Lexus Team Le Mans Eneos | 1:52.6010 |
| 17 | Koudai Tsukakoshi / Toshihiro Kaneishi | Honda HSV-010 GT (H010) | Keihin Real Racing | 1:52.9930 |
| 37 | Daisuke Itou / Andrea Caldarelli | Lexus SC430 (UZZ40) | Lexus Team KeePer Tom's | 1:53.2160 |
| 100 | Takuya Izawa / Takashi Kogure | Honda HSV-010 GT (H010) | Team Kunimitsu | 1:53.2530 |
| 61 | Tetsuya Yamano / Kota Sasaki / Takuto Iguchi | Subaru BRZ GT300 (DBA-ZC6) | R&D Sport | 2:01.6930 |
| 3 | Kazuki Hoshino / Daiki Sasaki / Lucas Ordoñez | Nissan GT-R Nismo GT3 (R35) | NDDP Racing | 2:02.4750 |
| 50 | Masaki Kano / Hideto Yasuoka / Ryohei Sakaguchi | Aston Martin V12 Vantage GT3 | Arnage Racing | 2:02.6800 |
| 33 | Masami Kageyama / Tomonobu Fujii | Porsche 997 GT3 R | Hankook KTR | 2:03.1090 |
| 62 | Haruki Kurosawa / Tsubasa Kurosawa / Akihiko Nakaya | Mercedes-Benz SLS AMG GT3 | Leon Racing | 2:03.2670 |
| 22 | Hisashi Wada / Masaki Jounai | Mercedes-Benz SLS AMG GT3 | R'Qs Motorsports | 2:03.4950 |
| 52 | Hironori Takeuchi / Takeshi Tsuchiya / Naoya Gamou | Mercedes-Benz SLS AMG GT3 | Okinawa-Imp Racing With Shift | 2:03.5690 |
| 55 | Shinichi Takagi / Takashi Kobayashi / Tomoki Nojiri | Honda CR-Z (ZF2) | Autobacs Racing Team Aguri | 2:03.5730 |
| 86 | Kouji Yamanishi / Shin'ya Hosokawa / Yuuya Sakamoto | Lamborghini Gallardo GT3 (09-7) | JLOC | 2:03.9200 |
| 9 | Shogo Mitsuyama / Yuu Yokomaku / Yuuya Sakamoto | Porsche 997 GT3 R | Pacific Direction Racing | 2:04.0130 |
| 0 | Kyousuke Mineo / Naoki Yokomizo | Porsche 997 GT3 R | Team Taisan Ken Endless | 2:04.0710 |
| 21 | Akihiro Tsuduki / Richard Lyons | Audi R8 LMS | Hitotsuyama Racing | 2:04.9780 |
| 48 | Hiroshi Takamori / Katsumasa Chiyo / Masaki Tanaka | Nissan GT-R Nismo GT3 (R35) | Dijon Racing | 2:06.7830 |