| 36 | Kazuki Nakajima / Yuuhi Sekiguchi | Lexus LC500 (URZ100) | Lexus Team au Tom's | 1:45.7750 |
| 37 | Ryō Hirakawa / Nick Cassidy | Lexus LC500 (URZ100) | Lexus Team KeePer Tom's | 1:45.7880 |
| 8 | Tomoki Nojiri / Takuya Izawa | Honda NSX-GT (NC1) | ARTA | 1:46.2070 |
| 12 | Daiki Sasaki / James Rossiter | Nissan GT-R (R35) | Team Impul | 1:46.2160 |
| 6 | Kazuya Oshima / Kenta Yamashita | Lexus LC500 (URZ100) | Lexus Team Le Mans Wako's | 1:46.2460 |
| 16 | Hideki Mutou / Daisuke Nakajima | Honda NSX-GT (NC1) | Team Mugen | 1:46.4620 |
| 1 | Naoki Yamamoto / Jenson Button | Honda NSX-GT (NC1) | Team Kunimitsu | 1:46.5190 |
| 17 | Koudai Tsukakoshi / Bertrand Baguette | Honda NSX-GT (NC1) | Keihin Real Racing | 1:46.5800 |
| 25 | Takamitsu Matsui / Kimiya Satou | Toyota 86MC (ZN6) | Tsuchiya Engineering | 1:57.0080 |
| 96 | Morio Nitta / Sena Sakaguchi | Lexus RC F GT3 (USC10) | K-tunes Racing | 1:57.1340 |
| 5 | Natsu Sakaguchi / Yuuya Hiraki | Toyota 86MC (ZN6) | Team Mach | 1:57.5710 |
| 61 | Takuto Iguchi / Hideki Yamauchi | Subaru BRZ GT300 (DBA-ZC6) | R&D Sport | 1:57.5870 |
| 10 | Kazuki Hoshino / Keishi Ishikawa | Nissan GT-R Nismo GT3 (R35) | Gainer | 1:57.6090 |
| 4 | Nobuteru Taniguchi / Tatsuya Kataoka | Mercedes-AMG GT3 (C190) | Goodsmile Racing & Team Ukyo | 1:57.9090 |
| 34 | Ryou Michigami / Hiroki Ootsu | Honda NSX-GT3 (NC1) | Modulo Drago Corse | 1:57.9350 |
| 360 | Takayuki Aoki / Yuusaku Shibata | Nissan GT-R Nismo GT3 (R35) | Tomei Sports | 1:57.9510 |
| 55 | Shinichi Takagi / Nirei Fukuzumi | Honda NSX-GT3 (NC1) | ARTA | 1:58.3430 |
| 88 | Takashi Kogure / Yuya Motojima | Lamborghini Huracán GT3 | JLOC | 1:58.4350 |
| 21 | Richard Lyons / Ryuichiro Tomita | Audi R8 LMS (ABA-4SCSPD) | Audi Team Hitotsuyama | 1:58.4360 |
| 11 | Katsuyuki Hiranaka / Hironobu Yasuda | Nissan GT-R Nismo GT3 (R35) | Gainer | 1:58.5080 |
| 31 | Kouki Saga / Yuuki Nakayama | Toyota Prius (ZVW52) | Apr | 1:58.5820 |
| 720 | Seiji Ara / Alex Palou | McLaren 720S (PA1) | McLaren Customer Racing Japan | 1:59.9410 |
| 33 | Shaun Thong / Marchy Lee | Nissan GT-R Nismo GT3 (R35) | X Works | 1:59.9690 |
| 2 | Kazuho Takahashi / Hiroki Katou | Lotus Evora (122) | Cars Tokai Dream28 | 2:02.7270 |