The reduced landing distance brings the runway down close to the same length as BHD so no major improvement there.
Only the LBA flights have been changed at the moment, if it was a major concern surely J2 should have ceased/moved operations entirely and promptly. perhaps they've done the figures and confirmed they need a runway longer than BHD to operate the network?
17/35 is closed at certain times when WIP is close to the intersection, 07 is also closed at those times but 25 is open with reduced distances (1770m TORA + LDA) (2080 ASDA) see notam's.
If J2 dont like the situation they only have the option of cancelling the longer routes or refuelling en-route if they choose to operate entirely from BHD. Expensive, especially if no other operator has a problem.