| 1st | 38 | Tachikawa / Ishiura | Lexus RC F (USC10) | Lexus Team Zent Cerumo | 1:28.5790 | 1:28.9290 | 1:28.5790 |
| 2nd | 8 | Matsuura / Nojiri | Honda NSX Concept-GT (NSX-P) | Autobacs Racing Team Aguri | 1:28.7330 | 1:28.9520 | 1:28.7330 |
| 3rd | 36 | Itou / Rossiter | Lexus RC F (USC10) | Lexus Team Petronas Tom's | 1:28.7960 | 1:29.0360 | 1:28.7960 |
| 4th | 39 | Hirate / Kovalainen | Lexus RC F (USC10) | Lexus Team Sard | 1:28.8040 | 1:29.1530 | 1:28.8040 |
| 5th | 15 | Kogure / Turvey | Honda NSX Concept-GT (NSX-P) | Drago Modulo Honda Racing | 1:28.9100 | 1:29.1080 | 1:28.9100 |
| 6th | 24 | Sasaki / Krumm | Nissan GT-R (R35) | Kondo Racing | 1:28.9630 | 1:28.9630 | 1:29.1240 |
| 7th | 100 | Yamamoto / Izawa | Honda NSX Concept-GT (NSX-P) | Team Kunimitsu | 1:29.1830 | 1:29.1830 | 1:29.4310 |
| 8th | 12 | Yasuda / de Oliveira | Nissan GT-R (R35) | Team Impul | 1:29.2250 | 1:29.2250 | 1:29.4370 |
| 9th | 6 | Oshima / Kunimoto | Lexus RC F (USC10) | Lexus Team Le Mans Eneos | 1:29.2710 | 1:29.2710 | |
| 10th | 46 | Motoyama / Yanagida | Nissan GT-R (R35) | Mola | 1:29.2840 | 1:29.2840 | |
| 11th | 1 | Matsuda / Quintarelli | Nissan GT-R (R35) | NISMO | 1:29.3450 | 1:29.3450 | |
| 12th | 37 | Caldarelli / Hirakawa | Lexus RC F (USC10) | Lexus Team KeePer Tom's | 1:29.3590 | 1:29.3590 | |
| 13th | 17 | Tsukakoshi / Mutou | Honda NSX Concept-GT (NSX-P) | Keihin Real Racing | 1:29.3860 | 1:29.3860 | |
| 14th | 64 | Nakajima / Baguette | Honda NSX Concept-GT (NSX-P) | Nakajima Racing | 1:29.6130 | 1:29.6130 | |
| 15th | 19 | Wakisaka / Sekiguchi | Lexus RC F (USC10) | Lexus Team WedsSport Bandoh | 1:30.0240 | 1:30.0240 | |
| 16th | 55 | Takagi / Kobayashi | Honda CR-Z (ZF2) | Autobacs Racing Team Aguri | 1:37.7970 | 1:37.7970 | 1:37.9750 |
| 17th | 65 | Kurosawa / Gamou | Mercedes-Benz SLS AMG GT3 (197) | Leon Racing | 1:38.0200 | 1:38.5420 | 1:38.0200 |
| 18th | 31 | Saga / Nakayama | Toyota Prius (ZVW30) | Apr | 1:38.0920 | 1:38.7000 | 1:38.0920 |
| 19th | 7 | Ara / Müller | BMW Z4 GT3 (E89) | BMW Sports Trophy Team Studie | 1:38.1100 | 1:38.3520 | 1:38.1100 |
| 20th | 0 | Taniguchi / Kataoka | Mercedes-Benz SLS AMG GT3 | Goodsmile Racing & TeamUkyo | 1:38.1530 | 1:38.6690 | 1:38.1530 |
| 21st | 25 | Tsuchiya / Matsui | Toyota 86 MC (MC86) | Vivac Team Tsuchiya | 1:38.1550 | 1:38.3110 | 1:38.1550 |
| 22nd | 11 | Hiranaka / Wirdheim | Mercedes-Benz SLS AMG GT3 | Gainer | 1:38.2030 | 1:38.5460 | 1:38.2030 |
| 23rd | 33 | Imperatori / Yamashita | Porsche 997 GT3 R | Porsche Team KTR | 1:38.4420 | 1:38.6300 | 1:38.4420 |
| 24th | 360 | Yoshida / Tanaka | Nissan GT-R Nismo GT3 (R35) | Tomei Sports | 1:38.8800 | 1:38.8800 | |
| 25th | 51 | Nitta / Wakisaka | BMW Z4 GT3 (E89) | LM Corsa | 1:38.5280 | 1:38.5280 | 1:38.6520 |
| 26th | 61 | Iguchi / Yamauchi | Subaru BRZ GT300 (DBA-ZC6) | R&D Sport | 1:38.6510 | 1:38.6510 | 1:38.6740 |
| 27th | 2 | Takahashi / Katou | Lotus Evora MC (122) | Cars Tokai Dream28 | 1:38.2780 | 1:38.2780 | 1:39.7440 |
| 28th | 10 | Couto / Chiyo | Nissan GT-R Nismo GT3 (R35) | Gainer | 1:38.7290 | 1:38.7920 | 1:38.7290 |
| 29th | 77 | Mineo / Iida | Ferrari 458 Italia GT3 | Direction Racing | 1:38.5480 | 1:38.5480 | 1:39.7150 |
| 30th | 88 | Orido / Satou | Lamborghini Gallardo GT3 (22-12226) | JLOC | 1:39.1020 | 1:39.1020 | |
| 31st | 3 | Hoshino / Takaboshi | Nissan GT-R Nismo GT3 (R35) | NDDP Racing | 1:39.1220 | 1:39.1220 | |
| 32nd | 50 | Kano / Indra-Payoong | Mercedes-Benz SLS AMG GT3 (197) | Arnage Racing | 1:39.2060 | 1:39.2060 | |
| 33rd | 21 | Lyons / Fujii | Audi R8 LMS Ultra | Audi Team Hitotsuyama | 1:39.2980 | 1:39.2980 | |
| 34th | 18 | Nakayama / Ide | Toyota 86 MC (86/ZN6) | Team Upgarage With Bandoh | 1:39.2990 | 1:39.2990 | |
| 35th | 5 | Tamanaka / Mitsuyama | Toyota 86 MC (86/ZN6) | Team Mach | 1:39.4380 | 1:39.4380 | |
| 36th | 48 | Takamori / Tanaka | Nissan GT-R Nismo GT3 (R35) | Dijon Racing | 1:39.6200 | 1:39.6200 | |
| 37th | 86 | Mamerow / Hosokawa | Audi R8 LMS Ultra | Audi Team Racing Tech | 1:39.7130 | 1:39.7130 | |
| 38th | 30 | Koizumi / Iwasaki | Nissan GT-R Nismo GT3 (R35) | Apr | 1:39.7420 | 1:39.7420 | |
| 39th | 47 | Yuzawa / Shibata | Nissan GT-R Nismo GT3 (R35) | Dijon Racing | 1:40.0280 | 1:40.0280 | |
| 40th | 111 | Ueda / Tsuruta | Mercedes-Benz SLS AMG GT3 | Rn-sports | 1:40.1250 | 1:40.1250 | |
| 41st | 9 | Shirasaka / Sakaguchi | McLaren MP4-12C GT3 | Pacific Racing Team | 1:40.1450 | 1:40.1450 | |
| 42nd | 87 | Aoki / Yamanishi | Lamborghini Gallardo GT-3 (09-7) | JLOC | 1:40.3280 | 1:40.3280 | |
| 43rd | 60 | Iida / Yoshimoto | Lexus RC F GT3 (USC10) | LM Corsa | 1:40.2610 | 1:40.2610 | |
| 45th | 22 | Wada / Jounai | Mercedes-Benz SLS AMG GT3 | R'Qs Motor Sports | no time | no time | |