[Lemmy]

i think it could work with ministers, each minister would only control specific type of ships or planets, they would have to agree on certain things offcourse.

Possible ministers:
Minister of Defense
assigns ships to to the different ministers, for example during peace, some warships could be assigned to the Minister of Exploration and Colonization to explore with.
Minister of War
controls tactical combat, or ships/fleet strategies, and warships
Minister of Exploration and Colonization
controls all colony ships and exploration ships
Minister of Production, per system
controls what is being built on the planets within the system, Minister of Defense can requests ships to be built from this minister.
Minister of Research and Design
controls what is being researched, and designs ships, would have to coordinate research and designs with other ministers
Minister of Diplomacy and Intelligence
controls all treaties with alien empires, and intelligence projects, could also control a few cloacked ships for spying on other empires