Hello, I get to the point right away:

I done exactly as the "quick start guide" Told me to. But I don't want to use Vanilla faction.
So I added the faction I want to use by doing this:
["LIB_US_ARMY","LIB_US_AIRFORCE","LIB_US_TANK_TROOPS","LIB_US_RANGERS"]
this I added in "Override Factions" for AI Commander module. Standard faction's are set to "NONE"
And for Enemy AI Commander the same but: ["LIB_WEHRMACHT"] in "Override Factions"
Enemy AI Commander synced with mil. Obj. and Civ Obj. CQB Module synced to Civ Obj.
I have entered in "Force Faction" for the Modules: LIB_WEHRMACHT,LIB_LUFTWAFFE,LIB_PANZERWAFFE
And synced my AI Commander + Enemy AI commander to Mil obj. and Civ obj.
But when I run the mission the vanilla faction CSAT spawns even in friendly marker where only friendly Module have permission for it.
So what to do here? is this a newly bug or something?
I am pritty sure I done it right since evrything is fine if I use oter factions.

Got it working. Looks like with Mod faction's or well have not tested... It seems you cant get it to work if you try to use more than 1 faction. So LIB_US_ARMY Works but not LIB_US_ARMY,LIB_US_AIRFORCE,ETC... .