Sepang
| Position | Rider | Team | Time/Gap |
| 1 | Marc Marquez | Honda | |
| 2 | Valentino Rossi | Yamaha | +2.445 |
| 3 | Jorge Lorenzo | Yamaha | +3.508s |
| 4 | Stefan Bradl | LCR Honda | +21.234s |
| 5 | Bradley Smith | Tech 3 Yamaha | +22.283s |
| 6 | Pol Espargaro | Tech 3 Yamaha | +34.668s |
| 7 | Yonny Hernandez | Pramac Ducati | +38.435s |
| 8 | Andrea Dovizioso | Ducati | +48.839s |
| 9 | Hector Barbera | Avintia Ducati | +50.792s |
| 10 | Scott Redding | Gresini Honda | +59.088s |
| 11 | Hiroshi Aoyama | Aspar Honda | +1:15.949s |
| 12 | Michael Laverty | PBM Aprilia | +1:17.966s |
| 13 | Mike Di Meglio | Avintia Kawasaki | +1:27.773s |
| 14 | Broc Parkes | PBM Aprilia | +1:44.244s |
| DNF | Alex De Angelis | Forward Yamaha | 1 lap |
| DNF | Danilo Petrucci | Ioda Racing Team ART | 6 laps |
| DNF | Dani Pedrosa | Hionda | 8 laps |
| DNF | Karel Abraham | Cardion Honda | 9 laps |
| DNF | Nicky Hayden | Aspar Honda | 14 laps |
| DNF | Cal Crutchlow | Ducati | 16 laps |
| DNF | Aleix Espargaro | Forward Yamaha | 19 laps |
| DNF | Alvaro Bautista | Gresini Honda | 19 laps |