the space stage works fine for me without the mod. thats really weird i would say the civ phase is my biggest disappointment. its just plain boring.
Everything past the creature stage should have been combined into single, "Civilization with a hint of Total War" stage. From a single tribal group expanding and advancing into a continent spanning superpower across tens of thousands of years. The transition between tribal, civ, and space stage will be completely seamless as instead of all of a sudden being able to build a spacecraft capable of intergalactic travel, there will be an expansive tech tree that goes through the ages.
You'll have to develop farming and/or herding before you can move past a gaggle of semi-isolated tribes spending all their time hunting and gathering. After that comes a loose confederation of hamlets with the standard cottage industry affair, and as technology grows urban centers start to develop.
As society advances so does the need for expansion. I'm imagining the space-race to be very much like our own cold-war inspired one. Two superpowers, each having control over more or less half of the world, race to be the first to branch out into the solar system. Only after one nation has complete control over not only the homeworld, but every colony in the solar system, are they capable of branching out to colonize other solar systems.
Tie all of this together with a Civilization-esque city building/founding and techtree, and borrow the army/combat elements from Total War, and then you'll have a good RTS/4X game.