My 2 credits...
The open-ended nature of the game is great, but there is, to my mind, little to actually *do*. Some contracts, build some stations, a lot of fighting, and exploration. That's it. I'd like to see more features just added to the universe in general:
-building gates
-*loads* of new equipment, but say you could only find certain pieces in certain places, not just the general special-stuff-in-hidden-planets.
-Change the fairly linear nature of ship components, make certain ship components only available in certain places.
-Alliance/Fed frames only available in those territories.
-Wormholes that spit you out randomly near uncharted planets.
-Bars you can go into to pick up info on uncharted planets.
-Have stations other than the trade station have more effect.
-Make items that could cost >10,000,000 credits, heck >100,000,000 or even higher.
-Ultra-rare frames that are perhaps both quick but also with fairly good shields, or especially high assembly, or high allocation-points (CMs, crew etc, those points, whatever they're called)
-Other alien races, some friendly or not? Choose between races???
-Stars that take up an actual amount of space, like several sectors in diameter.
-Special shields for 'stardiving'.
-Artifacts littered around, doing special things like teleportation, giving special equipment (once only?), blasting stuff etc.
-Make capitals truly powerful (i.e. several fighters needed to take one down, minimum. Even for eclipse.). This would encourage fleets, allying etc.
-Customising ship to have two particle cannons, or 3 lasers (large frames have more options)
-Underwater cities, allow spaceships to go underwater with the right upgrade.
-different looking ciites, some with special interior areas to dock etc.
-Mega-stations, which you can fly around in.
-Rare ores and minerals hidden in the giant asteroids
-More weapons, shields, missiles etc. (like more equipment, earlier)
-More things to do with the backstory, hidden beacons that say stuff about it, stuff in the news.
-More quests to follow
-Player-created quests (would be especially good in mp)
-Underground cities?
-Hollow planets? (tunnel leading into them)

-Stuff in the hollow planets (cities, containers, wormholes etc.)
-Giant living creatues, maybe some kind of alien skywhale or something living in gas giants (something anyway)
-Floating islands in gas giants - have the islands float around? (whilst staying facing outwards, of course)
-tunnels and stuff in said floating islands!
-New ships, able to fly capital ships??
-Diplomatic relations - have stuff in the news, which affects the universe, about e.g. tensions between different factions, war breaking out, espionage, perhaps you could become an official diplomat on one side's behalf!
-Make money not so easy to get hold of.
I could probably go on, but this is already quite a long post
