My problem with bounty hunters is they jump you while you're attacking someone else and drop you before you can react. It's the same issue I have with the enemies that lay triple-mines.
That may be because I have a fragile ship (400 shields, 500 armor, 200 structure), but it seems like I get two-shotted within a second by bounty hunters way too often.
(Not only that, but in one sector I'm apparently being hunted by 2 dozen of them from a single race. How does that even work? Will I have to fight 2-3 bounty hunters at once?)