| VA | From | Airport | To | Destination | Type | Distance miles | Frequency | Competitors | |
|---|---|---|---|---|---|---|---|---|---|
| AAA | YCKN | Cooktown | YBCS | Cairns Intl | Local | 92.5 | 0 | ||
| AAA | YCKN | Cooktown | YHID | Horn I | Local | 337.0 | 0 | ||
| AAA | YCKN | Cooktown | YLHR | Lockhart River | Local | 193.4 | 1 | ||
| AAW | YCKN | Cooktown | UHPP | Petropavlovsk-Kamchatsk - Yelizovo | Long | 4173.6 | 0 | ||
| AAW | YCKN | Cooktown | PHNL | Honolulu Intl | Long | 4009.2 | 1 | ||
| OPV | YCKN | Cooktown | YBCS | Cairns Intl | Local | 92.5 | 0 | ||
| SSF | YCKN | Cooktown | YBBN | Brisbane Intl | Regional | 841.7 | 0 |