Riding a motorcycle is by far the riskiest form of transportation.
https://turbli.com/blog/the-safest-transport-modes-ranked-by-statistics-from-10-years-of-data/
The data on commercial flights has similar issues than commuter flights. The probability of a fatality is so low that, despite accumulating such enormous amount of flight hours, many more would be needed to obtain a more acculturate value. An added problem is that a single crash of a plane generates a large spike in the fatalities, whereas a motorcycle crash leads to a small increase of just one or two.
In any case, even if an accurate value is hard to obtain, commercial flights remain as the safest transport.
This can be seen in the data from 2000-2009, where the fatalities per passenger miles were 0.07. This is higher than the current 0.002 value, but still much lower than cars. The reason for the higher values of the previous decade were two full crashes which occurred in 2001, killing about 500 people. Still, the fact that having these two crashes led to such low fatality rate of 0.07 (100 times lower than car), highlights how safe commercial planes are.
Electric bikes may well eclipse all of these in the near future judging how many operators abuse the "Rules of the Road"!