Aeon why they don't like is you is because you are friendly to their enemy whom THEY ARE AT WAR WITH, think carefully eventaully you will have to choose a side in this war. The Helghast have been your loyal ally and they have been good to HF. What they are angry about is you haven't done much. Helped us in battle or even joined the same chat group..... Just act like allies that's all we want be polite help us in battle against our enemies even if it means massive political fallout for your faction.
I help Helghast take on SF even though we are not at war I risk my clan's faction political status. And now he sees you allying with his enemy? That is un ally like. So as I said be allies to us not people in for mutual benefits. Helghast and I aren't allies because it suits us our clans work together.