Since a few weeks new firmware for the Bebop 1 has been available, version 3.2.0. This update reverses the order of the motors, which caused the Bebop flying with Pprz to crash immediately.
The example and all TUDelft airframe files have now been updated with the new order of things for firmware 3.2.0, but if you have a custom airframe file you need to do it yourself.
FYI, Pprz now checks whether the firmware is in fact 3.2.0, otherwise it won't upload anymore.