Grand Prix of Japan
| Pos. | Rider | Team | Bike | Time/Gap |
| 1 | Dani PEDROSA | Repsol Honda Team | Honda | 42’47.481 |
| 2 | Jorge LORENZO | Yamaha Factory Racing | Yamaha | +7.299 |
| 3 | Casey STONER | Repsol Honda Team | Honda | +18.380 |
| 4 | Marco SIMONCELLI | San Carlo Honda Gresini | Honda | +23.550 |
| 5 | Andrea DOVIZIOSO | Repsol Honda Team | Honda | +23.691 |
| 6 | Ben SPIES | Yamaha Factory Racing | Yamaha | +37.604 |
| 7 | Nicky HAYDEN | Ducati Team | Ducati | +39.167s |
| 8 | Colin EDWARDS | Monster Yamaha Tech 3 | Yamaha | +45.023 |
| 9 | Hiroshi AOYAMA | San Carlo Honda Gresini | Honda | +49.074 |
| 10 | Randy DE PUNIET | Pramac Racing Team | Ducati | +59.022 |
| 11 | Cal CRUTCHLOW | Monster Yamaha Tech 3 | Yamaha | +1’13.964 |
| 12 | Kousuke AKIYOSHI | LCR Honda MotoGP | Honda | +1’21.709 |
| 13 | Shinichi ITO | Honda Racing Team | Honda | +1’26.381 |
| DNF | Toni ELIAS | LCR Honda MotoGP | Honda | 7 Laps |
| DNF | Alvaro BAUTISTA | Rizla Suzuki MotoGP | Suzuki | 11 Laps |
| DNF | Damian CUDLIN | Pramac Racing Team | Ducati | 11 Laps |
| DNF | Hector BARBERA | Mapfre Aspar Team MotoGP | Ducati | 23 Laps |
| DNF | Valentino ROSSI | Ducati Team | Ducati | – |