| 1st | 36 | Kazuki Nakajima / Yuuhi Sekiguchi | Lexus LC500 (URZ100) | Lexus Team au Tom's | 1:45.7750 |
| 2nd | 37 | Ryō Hirakawa / Nick Cassidy | Lexus LC500 (URZ100) | Lexus Team KeePer Tom's | 1:45.7880 |
| 3rd | 8 | Tomoki Nojiri / Takuya Izawa | Honda NSX-GT (NC1) | ARTA | 1:45.9160 |
| 4th | 12 | Daiki Sasaki / James Rossiter | Nissan GT-R (R35) | Team Impul | 1:46.2160 |
| 5th | 6 | Kazuya Oshima / Kenta Yamashita | Lexus LC500 (URZ100) | Lexus Team Le Mans Wako's | 1:46.1440 |
| 6th | 16 | Hideki Mutou / Daisuke Nakajima | Honda NSX-GT (NC1) | Team Mugen | 1:46.4620 |
| 7th | 1 | Naoki Yamamoto / Jenson Button | Honda NSX-GT (NC1) | Team Kunimitsu | 1:46.5190 |
| 8th | 17 | Koudai Tsukakoshi / Bertrand Baguette | Honda NSX-GT (NC1) | Keihin Real Racing | 1:46.3500 |
| 9th | 39 | Heikki Kovalainen / Yuichi Nakayama | Lexus LC500 (URZ100) | Lexus Team SARD | 1:46.9490 |
| 10th | 23 | Tsugio Matsuda / Ronnie Quintarelli | Nissan GT-R (R35) | NISMO | 1:47.0760 |
| 11th | 19 | Yuuji Kunimoto / Syou Tsuboi | Lexus LC500 (URZ100) | Lexus Team WedsSport Bandoh | 1:47.1240 |
| 12th | 3 | Kouhei Hirate / Frédéric Makowiecki | Nissan GT-R (R35) | NDDP Racing with B-Max | 1:47.1770 |
| 13th | 24 | Mitsunori Takaboshi / Jann Mardenborough | Nissan GT-R (R35) | Kondo Racing | 1:47.1850 |
| 14th | 38 | Yuuji Tachikawa / Hiroaki Ishiura | Lexus LC500 (URZ100) | Lexus Team Zent Cerumo | 1:47.2890 |
| 15th | 64 | Narain Karthikeyan / Tadasuke Makino | Honda NSX-GT (NC1) | Modulo Nakajima Racing | 1:48.1500 |
| 17th | 25 | Takamitsu Matsui / Kimiya Satou | Toyota 86MC (ZN6) | Tsuchiya Engineering | 1:57.0080 |
| 18th | 96 | Morio Nitta / Sena Sakaguchi | Lexus RC F GT3 (USC10) | K-tunes Racing | 1:57.1340 |
| 19th | 5 | Natsu Sakaguchi / Yuuya Hiraki | Toyota 86MC (ZN6) | Team Mach | 1:57.5710 |
| 20th | 61 | Takuto Iguchi / Hideki Yamauchi | Subaru BRZ GT300 (DBA-ZC6) | R&D Sport | 1:57.5870 |
| 21st | 10 | Kazuki Hoshino / Keishi Ishikawa | Nissan GT-R Nismo GT3 (R35) | Gainer | 1:57.6090 |
| 22nd | 4 | Nobuteru Taniguchi / Tatsuya Kataoka | Mercedes-AMG GT3 (C190) | Goodsmile Racing & Team Ukyo | 1:57.9090 |
| 23rd | 34 | Ryou Michigami / Hiroki Ootsu | Honda NSX-GT3 (NC1) | Modulo Drago Corse | 1:57.9350 |
| 24th | 360 | Takayuki Aoki / Yuusaku Shibata | Nissan GT-R Nismo GT3 (R35) | Tomei Sports | 1:57.9510 |
| 25th | 55 | Shinichi Takagi / Nirei Fukuzumi | Honda NSX-GT3 (NC1) | ARTA | 1:58.3430 |
| 26th | 88 | Takashi Kogure / Yuya Motojima | Lamborghini Huracán GT3 | JLOC | 1:58.4350 |
| 27th | 21 | Richard Lyons / Ryuichiro Tomita | Audi R8 LMS (ABA-4SCSPD) | Audi Team Hitotsuyama | 1:58.4360 |
| 28th | 11 | Katsuyuki Hiranaka / Hironobu Yasuda | Nissan GT-R Nismo GT3 (R35) | Gainer | 1:58.5080 |
| 29th | 31 | Kouki Saga / Yuuki Nakayama | Toyota Prius (ZVW52) | Apr | 1:58.5820 |
| 30th | 720 | Seiji Ara / Alex Palou | McLaren 720S (PA1) | McLaren Customer Racing Japan | 1:58.8180 |
| 31st | 33 | Shaun Thong / Marchy Lee | Nissan GT-R Nismo GT3 (R35) | X Works | 1:57.7300 |
| 32nd | 2 | Kazuho Takahashi / Hiroki Katou | Lotus Evora (122) | Cars Tokai Dream28 | 1:57.9690 |
| 33rd | 30 | Hiroaki Nagai / Manabu Orido | Toyota Prius (ZVW52) | Apr | 1:59.2580 |
| 34th | 87 | Tsubasa Takahashi / André Couto | Lamborghini Huracán GT3 | JLOC | 1:59.3840 |
| 35th | 7 | Tomonobu Fujii / Joao Paolo de Oliveira | Aston Martin Vantage GT3 (ABA-AM601) | D'Station Racing AMR | 1:59.4830 |
| 36th | 60 | Hiroki Yoshimoto / Ritomo Miyata | Lexus RC F GT3 (USC10) | LM Corsa | 1:59.5820 |
| 37th | 56 | Kazuki Hiramine / Sacha Fenestraz | Nissan GT-R Nismo GT3 (R35) | Kondo Racing | 1:59.6840 |
| 38th | 65 | Haruki Kurosawa / Naoya Gamou | Mercedes-AMG GT3 (C190) | K2 R&D Leon Racing | 1:59.6950 |
| 39th | 18 | Takashi Kobayashi / Kousuke Matsuura | Honda NSX-GT3 (NC1) | Team Upgarage | 1:59.8870 |
| 40th | 50 | Masaki Kano / Ryousei Yamashita | Mercedes-AMG GT3 | Arnage Racing | 1:59.9010 |
| 41st | 52 | Shigekazu Wakisaka / Hiroki Yoshida | Toyota Mark X (GRX133) | Saitama Toyopet Green Brave | 2:00.0560 |
| 42nd | 35 | Nattapong Hortongkum / Sean Walkinshaw | Lexus RC F GT3 (USC10) | Panther Arto Team Thailand | 2:01.3700 |
| 43rd | 48 | Masaki Tanaka / Taiyo Iida | Nissan GT-R Nismo GT3 (R35) | Nilzz Racing | 2:01.5130 |
| 44th | 22 | Hisashi Wada / Masaki Jounai | Mercedes-AMG GT3 | R'Qs Motor Sports | 2:01.9600 |
| 45th | 9 | Naoki Yokomizo / Kyousuke Mineo | Porsche 991 GT3 R | Pacific Racing with Good Speed | |