| IATA | ICAO | Name | City | Type |
|---|---|---|---|---|
| - | EC-0042 | Floreana Heliport | Puerto Velasco Ibarra | Heliport |
| IBB | SEII | General Villamil Airport | Puerto Villamil | Small Airport Scheduled |
| SCY | SEST | San Cristóbal Airport | Puerto Baquerizo Moreno | Small Airport Scheduled |
| GPS | SEGS | Seymour Galapagos Ecological Airport | Isla Baltra | Small Airport Scheduled |
| - | EC-0002 | Seymour Island Airfield | Isla Baltra | Closed Airport |