If I get you right, omega, you're talking about an ari generator and some kind of waste processor?
Well, that's what we have the Command Center and GORF for. The CC houses all of the main life-support systems and each build has it's own sub-system. The GORF actually handles all non-biological waste and the Agridomes uses the biological waste there is for fertilizer and such. I believe that the waste these two can't handle gets just dumped outside or used in labs (what? the Acid Cloud IS formed from mettalic waste)