Worth remembering that British Airways / IAG owns 100% of BACF and is able to sack and appoint directors of BACF whenever it wants. Any director of BACF knows this and will thus do what is ultimately in IAG's interest.
Flybe do not own Loganair. Directors of Loganair act in the interests of Loganair alone and not for Flybe. The Flybe-Loganair franchise agreement is ultimately able to be terminated by either side.