The way I like to see it is that the GJ is fractured internally after Reunion because they lost their contract with the Crown and 99.99% of everywhere else hates them.
Their relations with Sirian Junkers is supposed to be strained to the point where Sirian Junkers are seen as false junkers, competition or lowly Sirians. However, the lore is quite broken and really needs to be repaired in order to get a clue to what's been going on.