Awhile back I recall you saying that you wanted to tie resources to a squad in someway, I believe it was something a long the lines of squads moving owned resources around, Anyway I just wanted to expand on that idea and suggest that you could perhaps tie resources to a squad in another way.
For example you could make it so for every resource point a faction controls, a VIP squad is spawned so for the Army it'd be a high ranking officer or for Loners a Veteran Stalker. These VIP squads will patrol between owned points and bases giving players the opportunity to hit them during a base assault or taking them out when wandering between their territories. If killed, the faction will suffer some sort of setback, maybe a temporary decrease in resources and lowered aggression making them less likely to send out attacks until they recover. You could also give the faction that killed the VIP a temporary buff of some sort, whether it be increased resources or lowered spawn times for squads.