How about you make something like in Star Control 2, well, how about you make it just like it! In the sequel, I would love to play it. But I won't be able to pay for it.
You could add all kinds of minerals, gases (Breaks wind), and .... other elemental stuff. You can visit other solar systems, find live (intelligent or otherwise) and collect resources (by making mines on the surface) You could have certain human outposts that supply you with technology, crew members, ships, fuel and information. You could talk to aliens and make a few allies, they would give you their coordinates and you can visit their planet for more technology and ships! You can customize your ship with weapons and scanner and all kinds of stuff! You could put Notrium as one of the planets and Netria (it's moon from my story) and Notrium's other moon (let's called it Orium) maybe even the Armada space station (the center of human space exploration) I'll think of more stuff later. The story, here it is........
It has been ten months since you escaped Notrium, and the humans have learned that ville corp. an Alien Organization has been secretely building up an army to conquer the whole galaxy. Since you have survived alot and have extremely good skills the Armada space station has retired you from being a marine, now you are a captain for the Wolf IX. It is your duty to fight the aliens in a war for freedom and justice. You will make allies, costumize your ship, find resources and much more on this war. Good Luck!!
That's all I can think of for now