The rep with gallic lawfuls is a bit annoying. Though, non-gallic Junkers, I think, should be hostile with all of Gallia seeing that they don't really belong there yet. Besides, a few missions at Lixhiem fixes that right up and there are EFL bribes there too. Being hostile with KNF is really annoying but is easily avoidable in the Taus if you just circumvent the battleships and Junkers shouldn't really be in Kusari unless they are looking to make a strike at the Hogosha, which, IMO, is sorta impossible due to the strong KNF defense at the borders.
All that aside, I feel that the KNF shouldn't be hostile to Junkers. I wouldn't think the emperor wouldn't want to make his ties to an illegal force so obvious. For example, Chicago PD sorta ignores The Outfit until one starry eyed DA puts their focus on them. They let them do their "business" but DOES crack down on them from time to time. I would like to see Kusari adopt this same mentality.