Alvaro Bautista fell halfway through the session.
Title contenders Dani Pedrosa and Jorge Lorenzo are returning from collarbone injuries at last weekend's German round.
Andrea Iannone has been ruled out after dislocating his shoulder and is not replaced. Iannone's long-injured team-mate Ben Spies is being replaced by Moto2 rider Alex de Angelis.
American Blake Young was due to make his second wild-card appearance of the year with Attack Performance Racing, but withdrew after heavy damage to the bike on Friday.
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1. Stefan Bradl GER LCR Honda MotoGP (RC213V) 1m 21.743s 2. Marc Marquez ESP Repsol Honda Team (RC213V) 1m 21.751s 3. Jorge Lorenzo ESP Yamaha Factory Racing (YZR-M1) 1m 21.834s 4. Alvaro Bautista ESP Go&Fun Honda Gresini (RC213V) 1m 22.359s 5. Valentino Rossi ITA Yamaha Factory Racing (YZR-M1) 1m 22.394s 6. Cal Crutchlow GBR Monster Yamaha Tech 3 (YZR-M1) 1m 22.474s 7. Bradley Smith GBR Monster Yamaha Tech 3 (YZR-M1) 1m 22.556s 8. Aleix Espargaro ESP Power Electronics Aspar (ART CRT) 1m 22.596s 9. Andrea Dovizioso ITA Ducati Team (GP13) 1m 22.651s 10. Nicky Hayden USA Ducati Team (GP13) 1m 22.651s 11. Dani Pedrosa ESP Repsol Honda Team (RC213V) 1m 22.755s 12. Hector Barbera ESP Avintia Blusens (FTR-Kawasaki CRT)* 1m 23.239s 13. Colin Edwards USA NGM Forward Racing (FTR-Kawasaki CRT)* 1m 23.471s 14. Alex De Angelis RSM Ignite Pramac Racing (GP13) 1m 23.480s 15. Randy De Puniet FRA Power Electronics Aspar (ART CRT) 1m 23.603s 16. Claudio Corti ITA NGM Forward Racing (FTR-Kawasaki CRT)* 1m 23.889s 17. Yonny Hernandez COL Paul Bird Motorsport (ART CRT) 1m 24.356s 18. Hiroshi Aoyama JPN Avintia Blusens (FTR-Kawasaki CRT)* 1m 24.481s 19. Danilo Petrucci ITA Came IodaRacing Project (Suter-BMW CRT)* 1m 24.559s 20. Michael Laverty GBR Paul Bird Motorsport (PBM-ART CRT)* 1m 24.673s 21. Karel Abraham CZE Cardion AB Motoracing (ART CRT) 1m 24.765s 22. Bryan Staring AUS Go&Fun Honda Gresini (FTR-Honda CRT) 1m 25.508s 23. Lukas Pesek CZE Came IodaRacing Project (Suter-BMW CRT)* 1m 26.108s * Standard ECU.
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