Stations will eventually be able to do some things for players:
1. Without a Station, you won't be able to engage in diplomacy. Diplomatic relations (and changes in how the Factions feel about each other, including your Faction) is an upcoming feature.
2. Eventually, you'll need Stations to win. Stations represent territory you've claimed; if you don't have Stations (and therefore a legitimate claim to the title of Space Emperor), you'll eventually get attacked by all of the Factions... and if you don't have a fleet powerful enough to capture an enemy Station, you'll lose the game.
3. Establishing a Station will be an important diplomatic event, in the sense that you're staking a claim to a System. Factions in that System will react negatively to this.
4. Stations will probably become income centers at some point, but at that point in the game, money is probably the least interesting problem you'll have.
I might make a simplistic rock-paper-scissors dynamic, where Stations can have different settings; a Trade Station might produce income but would produce weak fleets and fare poorly against Assault Forces, a Defense Station might eat a little income and produce fleets designed to hold the System and have an enhanced defense against Assault Forces, and an Attack Station would eat a lot of income and produce fleets that are designed to damage enemy fleets and take their Stations.
I don't want to get any deeper into that stuff atm, though; I haven't even built the basics of diplomacy yet, and I need to do stuff like ensure an even scattering of the Factions throughout the game and make the AI players behave a little more intelligently first; right now their "AI" is incredibly stupid and all we have is a simplistic "take over the galaxy" game where if you don't make any new enemies, it's very simple to win.
Anyhow... that is the plan, roughly. Right now I just have the bare-bones structure, in terms of explaining things to newbies and a win condition.
Also, after much debugging and polishing, I think that the Glaug are buffed and their regenerating-armor shtick is pretty cool. I am thinking about also adding another type of special effect like this- a "shield" that trades damage for Flux and nullifies damage while it's on. After getting the Glaug's new stuff working, I am really intrigued by the idea of getting rid of the circular-shield problems in other places where something else might work better (lookin' at you, Acanthus).