Newly released data shows flights to Sydney were the most likely to be cancelled out of Canberra Airport for October, with a rate of 2.3 per cent.

While the figure dropped significantly from the highs of more than 8 per cent in September 2017, the rate is still greater than the national average for the month of 1.7 per cent of scheduled flights.

Virgin flights between Canberra and Sydney were the most likely to be cancelled during October, with 4.1 per cent of their flights not taking off, compared to 1.4 per cent of Qantas flights.

However, it was a different story on the return journey, with 3.3 per cent of Virgin flights cancelled and less than 1 per cent of Qantas flights cancelled.

The overall cancellation rate for Canberra to Sydney flights for October was at its highest level since July, when the rate was 3.2 per cent.

According to the report, the rate for cancellations and on-time flights were lower than the national average.

"This month's on-time arrival figures [76.9 for arrivals and 78.3 per cent for departures] was lower than the long-term average performance of all routes at 82.6 per cent," the report said.

"The [national] rate of cancellations, 1.7 per cent, was higher than the long-term average of 1.4 per cent."

Across other flights in and out of Canberra, it was a different story.

While Canberra to Brisbane flights were at similar levels to Sydney routes at 2.2 per cent, all other flights were at or below the national average.

Brisbane to Canberra and Melbourne to Canberra routes both had 1.4 per cent of flights cancelled, while Canberra to Melbourne had just 0.8 per cent of its 496 flights during October cancelled.

Canberra to Adelaide had the best track record out of any route out of the national capital, with all of its 80 flights getting up in the air.

Data for November is set to be released in coming weeks, which is expected to include a number of cancellations due to strong weather.

Large winds in both Sydney and Melbourne during late November had a knock-on effect to Canberra, with several flights in and out of the capital cancelled as a result.

Cancellation rates for Canberra to Sydney flights has often been a source of contention for Canberra Airport, with its managing director Stephen Byron writing to Qantas and Virgin in April offering $100,000 to the airline with the lowest monthly cancellation rate.

The airport had been at loggerheads with Qantas, with the airline's domestic boss Andrew David saying in May the airport's heavy-handed tactics were threatening its relationship.