Just a head up for anyone who bothers with the terrible, boring Archonexus Quest like I did. Don't. It will brick your entire save if you already have joined the Deserter.

Nothing will work anymore. The Services to spawn quests won't work despite still consuming Intel. The Plots will be bricked - they won't even show rewards properly and can't be started. And the Empire will be at +100 relation but hostile, in red. There is no way to rectify this save reloading from BEFORE the Archonexus Quest. Dev-mode spawning in another Deserter Chased quest won't work because you have already joined, and Dev-mode relation changes won't work as well.

I only did the Archonexus Quest because I got tired of my community full of incompetent people who hate my Ugly Naked Survivor start pawn, and wanted to give them all a meaningful conclusion while I take him and my other few worthy pawns for a new beginning. But that stupid Archonexus Quest bricks everything. It even reset relations so I am not enemies with all of the factions in the game anymore (and by doing this, breaking VE Deserter, I think).