Sedangkan Jack Miller (Pramac Racing Ducati) dan Andrea Dovizioso (Mission Winnow Ducati) berurutan di grid start keenam dan ketujuh.
Sementara Danilo Petrucci, Aleix Espargaro, dan Valentino Rossi melengkapi start di sepuluh besar.
Hasil Lengkap Kualifikasi MotoGP Motegi, Jepang 2019:
1. Marc Marquez (Repsol Honda Team) – 1:45.763
2. Franco Morbidelli (Petronas Yamaha SRT) + 0.132
3. Fabio Quartararo (Petronas Yamaha SRT) + 0.181
4. Maverick Viñales (Monster Energy Yamaha MotoGP) + 0.327
5. Cal Crutchlow (LCR Honda Castrol) + 0.426
6. Jack Miller (Pramac Racing) + 0.574
7. Andrea Dovizioso (Ducati Team) + 0.647
8. Danilo Petrucci (Ducati Team) + 0.664
9. Aleix Espargaro (Aprilia Racing Team Gresini) + 0.795
10. Valentino Rossi (Monster Energy Yamaha MotoGP) + 0.795
11. Alex Rins (Team Suzuki Ecstar) + 0.837
12. Joan Mir (Team Suzuki Ecstar) + 0.853. (lan)