Yea, no more power-down, just stand-down, but the human settlements had their energy cost removed so that was a net gain 
If you really don't want to spend the energy on the mercenary dock (or whatever), you can just scrap it and rebuild it if you ever need it again.
To the original question: nope, no control over what it gives you to start with, but I think the cryo pods, human settlements, and home command station are the only parts that are both non-scrappable and non-moveable.
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It would be a rather hilarious oversight if it was possible to scrap the home command station.
I actually tested this, and I'm pretty sure the home command station is immune to being scrapped, because nothing would happen when I said "Yeah, go ahead and kill ourselves."
