Course disputée sur le circuit de Twin Ring Motegi
| Position | Numéro | Pilote | Team | Temps | Tours | Points | Départ |
|---|---|---|---|---|---|---|---|
| 1 | 99 | Jorge Lorenzo | Yamaha Factory Racing | 14:31:31 | 24 | 25 | 1 |
| 2 | 93 | Marc Marquez | Repsol Honda Team | 15:24:39 | 24 | 20 | 2 |
| 3 | 26 | Dani Pedrosa | Repsol Honda Team | 15:48:03 | 24 | 16 | 4 |
| 4 | 19 | Alvaro Bautista | Honda Gresini | 20:00:46 | 24 | 13 | 7 |
| 5 | 6 | Stefan Bradl | LCR Honda MotoGP | 20:51:41 | 24 | 11 | 8 |
| 6 | 46 | Valentino Rossi | Yamaha Factory Racing | 21:22:08 | 24 | 10 | 5 |
| 7 | 35 | Cal Crutchlow | Tech3 Yamaha | 22:09:47 | 24 | 9 | 11 |
| 8 | 38 | Bradley Smith | Monster Yamaha Tech 3 | 23:07:40 | 24 | 8 | 13 |
| 9 | 69 | Nicky Hayden | Ducati Team | 00:48:21 | 24 | 7 | 3 |
| 10 | 4 | Andrea Dovizioso | Ducati Team | 02:27:15 | 24 | 6 | 6 |
| 11 | 21 | Katsuyuki Nakasuga | Yamaha Ysp Racing Team | 05:20:36 | 24 | 5 | 12 |
| 12 | 5 | Colin Edwards | Forward Racing (CRT) | 08:05:04 | 24 | 4 | 14 |
| 13 | 14 | Randy De Puniet | Aspar Team MotoGP (CRT) | 09:05:31 | 24 | 3 | 17 |
| 14 | 29 | Andrea Iannone | Energy T.i. Pramac Racing | 09:28:29 | 24 | 2 | 15 |
| 15 | 68 | Yonny Hernandez | Paul Bird Racing (CRT) | 12:15:31 | 24 | 1 | 10 |
| 16 | 8 | Hector Barbera | Avintia Blusens (crt) | 12:29:59 | 24 | 0 | 22 |
| 17 | 7 | Hiroshi Aoyama | Avintia Blusens (crt) | 13:04:25 | 24 | 0 | 18 |
| 18 | 9 | Danilo Petrucci | Came Iodaracing Project (crt) | 15:40:37 | 24 | 0 | 16 |
| 19 | 70 | Michael Laverty | Paul Bird Racing (CRT) | 06:20:49 | 24 | 0 | 19 |
| 20 | 71 | Claudio Corti | NGM Mobile Forward Racing | 19:49:04 | 23 | 0 | 21 |
| 21 | 50 | Damian Cudlin | Paul Bird Racing (CRT) | 00:42:39 | 23 | 0 | 23 |
| 22 | 67 | Bryan Staring | Honda Gresini | 01:21:30 | 23 | 0 | 24 |
| 23 | 41 | Aleix Espargaro | Aspar Team MotoGP (CRT) | 04:51:53 | 12 | 0 | 9 |
| 24 | 52 | Karel Pesek | Came Iodaracing Project (crt) | 11:26:58 | 1 | 0 | 25 |
| 25 | 23 | Luca Scassa | Cardion AB Motoracing | 10:15:49 | 1 | 0 | 20 |