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After 9/11 people are not going to let hijackers run the plane. They may hurt you in retaking the plane, but if they fly it into a building you'll be dead for sure.

Since mid-morning on 9/11, in fact.

https://en.wikipedia.org/wiki/United_Airlines_Flight_93

Recognising that domestic flights also need security and not treating them like flying Greyhound buses probably helped.