Indigo Brotherhood faction - How to fix?

[Lhancelot]

Long story short, I killed the Orc Chief in Lfay on my Innoruuk worshipping human cleric... Before that, he was not KOS to dark elves at the camp in Lfay but now he is. I want to improve this faction without destroying my faction with the high lives and wood elves! Is this possible? Every quest or NPC kill I seen to raise Indigo Brotherhood seems to smash multiple good factions. I am hoping Sorne or someone knowledgable on factions can help me out.