| 6 | Kazuya Oshima / Kenta Yamashita | Lexus LC500 (URZ100) | Lexus Team Le Mans Wako's | 1:23.2600 |
| 19 | Yuuji Kunimoto / Syou Tsuboi | Lexus LC500 (URZ100) | Lexus Team WedsSport Bandoh | 1:23.3500 |
| 3 | Kouhei Hirate / Frédéric Makowiecki | Nissan GT-R (R35) | NDDP Racing with B-Max | 1:23.4550 |
| 36 | Kazuki Nakajima / Yuuhi Sekiguchi | Lexus LC500 (URZ100) | Lexus Team au Tom's | 1:23.4570 |
| 37 | Ryo Hirakawa / Nick Cassidy | Lexus LC500 (URZ100) | Lexus Team KeePer Tom's | 1:23.4710 |
| 24 | Mitsunori Takaboshi / Jann Mardenborough | Nissan GT-R (R35) | Kondo Racing | 1:23.6460 |
| 1 | Naoki Yamamoto / Jenson Button | Honda NSX-GT (NC1) | Team Kunimitsu | 1:23.7360 |
| 8 | Tomoki Nojiri / Takuya Izawa | Honda NSX-GT (NC1) | ARTA | 1:23.8090 |
| 25 | Takamitsu Matsui / Kimiya Satou | Toyota 86MC (ZN6) | Tsuchiya Engineering | 1:31.8390 |
| 56 | Kazuki Hiramine / Sacha Fenestraz | Nissan GT-R Nismo GT3 (R35) | Kondo Racing | 1:32.0570 |
| 7 | Tomonobu Fujii / Joao Paolo de Oliveira | Aston Martin Vantage GT3 (ABA-AM601) | D'Station Racing AMR | 1:32.1110 |
| 11 | Katsuyuki Hiranaka / Hironobu Yasuda | Nissan GT-R Nismo GT3 (R35) | Gainer | 1:32.4760 |
| 55 | Shinichi Takagi / Nirei Fukuzumi | Honda NSX-GT3 (NC1) | ARTA | 1:32.6220 |
| 65 | Haruki Kurosawa / Naoya Gamou | Mercedes-AMG GT3 (C190) | K2 R&D Leon Racing | 1:32.6330 |
| 10 | Kazuki Hoshino / Keishi Ishikawa | Nissan GT-R Nismo GT3 (R35) | Gainer | 1:32.7620 |
| 4 | Nobuteru Taniguchi / Tatsuya Kataoka | Mercedes-AMG GT3 (C190) | Goodsmile Racing & Team Ukyo | 1:32.7670 |
| 21 | Richard Lyons / Ryuichiro Tomita | Audi R8 LMS (ABA-4SCSPD) | Audi Team Hitotsuyama | 1:32.9480 |
| 33 | Shaun Thong / Marchy Lee | Nissan GT-R Nismo GT3 (R35) | X Works | 1:32.9930 |
| 34 | Ryou Michigami / Hiroki Ootsu | Honda NSX-GT3 (NC1) | Modulo Drago Corse | 1:33.0230 |
| 60 | Hiroki Yoshimoto / Ritomo Miyata | Lexus RC F GT3 (USC10) | LM Corsa | 1:33.2250 |
| 61 | Takuto Iguchi / Hideki Yamauchi | Subaru BRZ GT300 (DBA-ZC6) | R&D Sport | 1:33.2850 |
| 87 | Tsubasa Takahashi / André Couto | Lamborghini Huracán GT3 | JLOC | 1:33.4640 |
| 96 | Morio Nitta / Sena Sakaguchi | Lexus RC F GT3 (USC10) | K-tunes Racing | 1:34.3590 |
| 2 | Kazuho Takahashi / Hiroki Katou | Lotus Evora (122) | Cars Tokai Dream28 | 1:38.4520 |