Yeah, I noticed that, and went ahead and fixed it. Here's pics of everything so far:
Main room (i'll fix the chests!)

Factory room

aand the Powerhaus:

EDIT: I removed the capacitors along the wall and instead added a bunch of capacitors (108, to be exact) in the empty space between each power reactor group, so now I have 125k max power with 20k power per sec.
And then pirates show up.