I really like the ships and lore in this mod!
Are these ships meant to be balanced vs vanilla? They are arguably overpowered if so. The cruisers have the hull strengths of capital ships and the capitals are ridiculously strong. That, and since their weapons are all energy based, there is no way to exhaust their ammo. Some of the overpowered ships have descriptions stating they have limited staying power on the field, but they win in every race to overload their flux capacity.
I feel the faction needs some sort of weakness that can be exploited. Perhaps CR limits on a number of them? Though, I am not a big fan of CR limits. Or switch some of their weapons to ammo based.