Berikut hasil kualifikasi MotoGP San Marino 2021.

1 Francesco Bagnaia ITA Ducati Team (GP21)
2 Jack Miller AUS Ducati Team (GP21) 
3 Fabio Quartararo FRA Monster Yamaha (YZR-M1)
4 Jorge Martin SPA Pramac Ducati (GP21)* 
5 Johann Zarco FRA Pramac Ducati (GP21)
6 Pol Espargaro SPA Repsol Honda (RC213V)
7 Marc Marquez SPA Repsol Honda (RC213V)
8 Aleix Espargaro SPA Aprilia Gresini (RS-GP)
9 Alex Rins SPA Suzuki Ecstar (GSX-RR) 
10 Maverick Viñales SPA Aprilia Gresini (RS-GP)
11 Joan Mir SPA Suzuki Ecstar (GSX-RR)
12 Enea Bastianini ITA Avintia Ducati (GP19)*
13 Takaaki Nakagami JPN LCR Honda (RC213V)
14 Michele Pirro ITA Ducati Team (GP21) 
15 Luca Marini ITA Sky VR46 Avintia Ducati (GP19)*
16 Franco Morbidelli ITA Monster Yamaha (YZR-M1)
17 Brad Binder RSA Red Bull KTM (RC16)
18 Stefan Bradl GER HRC (RC213V)
19 Alex Marquez SPA LCR Honda (RC213V)
20 Iker Lecuona SPA KTM Tech3 (RC16)
21 Miguel Oliveira POR Red Bull KTM (RC16)
22 Danilo Petrucci ITA KTM Tech3 (RC16)
23 Valentino Rossi ITA Petronas Yamaha (YZR-M1)
24 Andrea Dovizioso ITA Petronas Yamaha (YZR-M1)