Hi. The Bounty Hunters are a predominantly lawful force who while, yes, do us the favor or cleaning up OCs and Rogues now and then, are also onboard with the Republic to shoot at us and both of our only allies.
Furthermore, the HF is an extremely ideological faction and generally frowns (at least publicly) upon the idea of killing for money. While I agree that roleplay ought to be handled on a case by case basis (and in this case, I wasn't there), shooting Hunters generally shouldn't be considered a problem unless they're actively stating that they have no interest in engaging, and even then they're walking on very, very thin ice.
It's also worth noting that the official BHG| faction makes a habit of out of hunting down and crushing us under their boot heels, so that's a thing too. Obviously indies =/= BHG|, but at the end of the day both are representing the same NPC faction so it would be rather illogical for us to not expect the same from your average hunter.