Calificación Moto3 - Gran Premio de San Marino 2013
| Pos. | Piloto | Equipo | Moto | Tiempo |
|---|---|---|---|---|
| 1 | 
Jonas Folger |
Mapfre Aspar Team Moto3 | Kalex KTM | 1:42.707 |
| 2 | 
Alex Rins |
Estrella Galicia 0,0 | KTM | +0.061 |
| 3 |
Maverick Viñales |
Team Calvo | KTM | +0.464 |
| 4 | 
Zulfahmi Khairuddin |
Red Bull KTM Ajo | KTM | +0.950 |
| 5 | 
Niccolo Antonelli |
GO&FUN Gresini Moto3 | FTR Honda | +1.020 |
| 6 | 
Miguel Oliveira |
Mahindra Racing | Mahindra | +1.087 |
| 7 | 
Eric Granado |
Mapfre Aspar Team Moto3 | Kalex KTM | +1.136 |
| 8 |
Isaac Viñales |
Bimbo-Ongetta-Centro Seta | FTR Honda | +1.171 |
| 9 |
Álex Márquez |
Estrella Galicia 0,0 | KTM | +1.246 |
| 10 |
Luis Salom |
Red Bull KTM Ajo | KTM | +1.253 |
| 11 | 
Jack Miller |
Caretta Technology - RTG | FTR Honda | +1.255 |
| 12 | 
Alexis Masbou |
Ongetta-Rivacold | FTR Honda | +1.264 |
| 13 |
Philipp Oettl |
Paddock TT Motion Events | Kalex KTM | +1.344 |
| 14 |
Efrén Vazquez |
Mahindra Racing | Mahindra | +1.374 |
| 15 |
Romano Fenati |
San Carlo Team Italia | FTR Honda | +1.446 |
| 16 | 
Jakub Kornfeil |
Redox RW Racing GP | Kalex KTM | +1.596 |
| 17 | 
John Mcphee |
Caretta Technology - RTG | FTR Honda | +1.620 |
| 18 |
Arthur Sissis |
Red Bull KTM Ajo | KTM | +1.698 |
| 19 |
Alan Techer |
CIP Moto3 | TSR Honda | +1.741 |
| 20 |
Alessandro Tonucci |
La Fonte Tascaracing | Honda | +1.843 |
| 21 | 
Niklas Ajo |
Avant Tecno | KTM | +1.902 |
| 22 |
Toni Finsterbusch |
Kiefer Racing | Kalex KTM | +1.947 |
| 23 | 
Livio Loi |
Marc VDS Racing Team | Kalex KTM | +2.025 |
| 24 | 
Brad Binder |
Ambrogio Racing | Suter Honda | +2.027 |
| 25 |
Matteo Ferrari |
Ongetta-Centro Seta | FTR Honda | +2.034 |
| 26 |
Andrea Locatelli |
Mahindra Racing | Mahindra | +2.049 |
| 27 |
Lorenzo Baldassarri |
GO&FUN Gresini Moto3 | FTR Honda | +2.101 |
| 28 |
Ana Carrasco |
Team Calvo | KTM | +2.195 |
| 29 |
Luca Marini |
Twelve Racing | FTR Honda | +2.358 |
| 30 |
Juanfran Guevara |
CIP Moto3 | TSR Honda | +2.450 |
| 31 |
Francesco Bagnaia |
San Carlo Team Italia | FTR Honda | +2.460 |
| 32 | 
Kazuki Watanabe |
La Fonte Tascaracing | Honda | +2.505 |
| 33 | 
Jasper Iwema |
RW Racing GP | Kalex KTM | +2.593 |
| 34 |
Florian Alt |
Kiefer Racing | Kalex KTM | +2.732 |
| 35 |
Luca Amato |
Mahindra Spiel-Kiste | Mahindra | +3.324 |