| P | Driver | Team | Q1 | Q2 | Q3 | Laps |
| 1 | Lewis Hamilton | Mercedes | 01:31.391 | 01:30.039 | 01:29.493 | 14 |
| 2 | Nico Rosberg | Mercedes | 01:31.325 | 01:30.535 | 01:29.570 | 13 |
| 3 | Sebastian Vettel | Scuderia Ferrari | 01:31.636 | 01:30.409 | 01:30.012 | 14 |
| 4 | Kimi Räikkönen | Scuderia Ferrari | 01:31.685 | 01:30.559 | 01:30.244 | 14 |
| 5 | Daniel Ricciardo | Red Bull Racing | 01:31.403 | 01:31.122 | 01:30.854 | 12 |
| 6 | Valtteri Bottas | Williams | 01:31.672 | 01:30.931 | 01:31.153 | 12 |
| 7 | Felipe Massa | Williams | 01:32.045 | 01:31.374 | 01:31.155 | 10 |
| 8 | Nico Hülkenberg | Force India | 01:31.987 | 01:31.604 | 01:31.620 | 15 |
| 9 | Romain Grosjean | Haas | 01:32.005 | 01:31.756 | 9 | |
| 10 | Max Verstappen | Toro Rosso | 01:31.888 | 01:31.772 | 9 | |
| 11 | Carlos Sainz | Toro Rosso | 01:31.716 | 01:31.816 | 9 | |
| 12 | Stoffel Vandoorne* | McLaren | 01:32.472 | 01:31.934 | 9 | |
| 13 | Esteban Gutierrez | Haas | 01:32.118 | 01:31.945 | 9 | |
| 14 | Jenson Button | McLaren | 01:31.976 | 01:31.998 | 9 | |
| 15 | Daniil Kvyat | Red Bull Racing | 01:32.559 | 01:32.241 | 9 | |
| 16 | Pascal Wehrlein | Manor Racing | 01:32.806 | 6 | ||
| 17 | Marcus Ericsson | Sauber | 01:32.840 | 6 | ||
| 18 | Sergio Perez | Force India | 01:32.911 | 7 | ||
| 19 | Kevin Magnussen^ | Renault | 01:33.181 | 3 | ||
| 20 | Jolyon Palmer | Renault | 01:33.438 | 6 | ||
| 21 | Rio Haryanto | Manor Racing | 01:34.190 | 3 | ||
| 22 | Felipe Nasr | Sauber | 01:34.388 | 4 |
*Replaced Fernando Alonso
^Pitlane start penalty, failed to stop at a red light for a weight check during FP2
Note: McLaren driver Fernando Alonso was ruled out of the Bahrain Grand Prix on medical grounds.
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