| 17 | Koudai Tsukakoshi / Bertrand Baguette | Honda NSX-GT (NC1) | Keihin Real Racing | 1:09.6760 |
| 1 | Naoki Yamamoto / Jenson Button | Honda NSX-GT (NC1) | Team Kunimitsu | 1:10.1510 |
| 36 | Kazuki Nakajima / Yuuhi Sekiguchi | Lexus LC500 (URZ100) | Lexus Team au Tom's | 1:10.1630 |
| 37 | Ryō Hirakawa / Nick Cassidy | Lexus LC500 (URZ100) | Lexus Team KeePer Tom's | 1:10.6900 |
| 19 | Yuuji Kunimoto / Syou Tsuboi | Lexus LC500 (URZ100) | Lexus Team WedsSport Bandoh | 1:10.7170 |
| 64 | Narain Karthikeyan / Tadasuke Makino | Honda NSX-GT (NC1) | Modulo Nakajima Racing | 1:10.7990 |
| 3 | Kouhei Hirate / Frédéric Makowiecki | Nissan GT-R (R35) | NDDP Racing with B-Max | 1:11.0260 |
| 6 | Kazuya Oshima / Kenta Yamashita | Lexus LC500 (URZ100) | Lexus Team Le Mans Wako's | 1:11.3030 |
| 61 | Takuto Iguchi / Hideki Yamauchi | Subaru BRZ GT300 (DBA-ZC6) | R&D Sport | 1:16.8340 |
| 55 | Shinichi Takagi / Nirei Fukuzumi | Honda NSX-GT3 (NC1) | ARTA | 1:17.1890 |
| 25 | Takamitsu Matsui / Kimiya Satou | Toyota 86MC (ZN6) | Tsuchiya Engineering | 1:17.5170 |
| 56 | Kazuki Hiramine / Sacha Fenestraz | Nissan GT-R Nismo GT3 (R35) | Kondo Racing | 1:17.5610 |
| 7 | Tomonobu Fujii / Joao Paolo de Oliveira | Aston Martin Vantage GT3 (ABA-AM601) | D'Station Racing AMR | 1:17.7670 |
| 4 | Nobuteru Taniguchi / Tatsuya Kataoka | Mercedes-AMG GT3 (C190) | Goodsmile Racing & Team Ukyo | 1:17.8280 |
| 33 | Shaun Thong / Shinya Michimi | Nissan GT-R Nismo GT3 (R35) | X Works | 1:18.0050 |
| 10 | Kazuki Hoshino / Keishi Ishikawa | Nissan GT-R Nismo GT3 (R35) | Gainer | 1:18.3060 |
| 34 | Ryou Michigami / Hiroki Ootsu | Honda NSX-GT3 (NC1) | Modulo Drago Corse | 1:18.4300 |
| 720 | Seiji Ara / Alex Palou | McLaren 720S (PA1) | McLaren Customer Racing Japan | 1:18.4810 |
| 360 | Takayuki Aoki / Yuusaku Shibata | Nissan GT-R Nismo GT3 (R35) | Tomei Sports | 1:18.4940 |
| 31 | Kouki Saga / Yuuki Nakayama | Toyota Prius (ZVW52) | Apr | 1:18.5630 |
| 65 | Naoya Gamou / Tougo Suganami | Mercedes-AMG GT3 (C190) | K2 R&D Leon Racing | 1:18.5960 |
| 60 | Hiroki Yoshimoto / Ritomo Miyata | Lexus RC F GT3 (USC10) | LM Corsa | 1:18.9320 |
| 35 | Nattapong Hortongkum / Sean Walkinshaw | Lexus RC F GT3 (USC10) | Panther Arto Team Thailand | 1:19.7080 |
| 30 | Hiroaki Nagai / Manabu Orido | Toyota Prius (ZVW52) | Apr | 1:20.9040 |