I really liked this. Atmospheric, eerie, a little hard, but still fun. It was on my second playthrough that I noticed the "flowers" seemed to be growing out of corpses, and that got me really intrigued. The mention of Quarantine systems also got me curious. Were the flowers part of some disease? Were we escaping a plague zone?
So I was disappointed that there was such a small focus on storytelling. The first "They Left Us To Die" billboard graffiti had me hoping there'd be more story pieces in the background, but it never happened. I agree that some kind of upgrade system for the ship would have been nice, but it isn't completely necessary. I just would have liked to have more info on where we were, what happened to the city, why was it quarantined, and why they nuked it in the end. Context could have taken this from 4 to 5. Still really, really nice.