What level are you at? I'm at lvl 8, half way to lvl 9 and I only have the Workshop, Laboratory, and Inferiority unlocked and I've almost fully cleared lvl 3-3.
Edit:
Ok, figured things out..finally. Gotta collect those main missions to gain access to stuff. Was holding off on that since I wanted to save the resources, but that's what you need to do to unlock stuff. Wish the game was more specific about that.