It is a bit odd that FR have chosen to launch these flights from BHD's relatively restricted runway instead of their existing airport station at BFS. I guess BHD offered too good a deal. You'd have thought Aer Lingus might have operated these flights, but looks like they weren't interested or FR got in there first.
Ryanair might be able to reduce confusion between BHD and BFS by operating Buzz and Malta Air into BFS (for example) and Ryanair/Ryanair UK into the other? Im sure some people will end up at the wrong airport.