Something I've noticed is that when you're in the endgame, it can get hard to tell at a glance what you've already researched and what still needs to be researched. I'd like it if there were a way to hide the stuff you've already researched, the way that the search function hides what you're not looking for. Though I have to admit, this may lower the skill ceiling for planning research since it would mean that the ability to remember/plan ahead is less valuable.
I'd also like it if items were more clear about what can have them, I think that would make the game easier to learn without removing any depth for those who're familiar with the game. As it stands now, I can't tell from reading the description of (for example) a planet item what planets I can put it on.