There must be changes to the game which Uber could add to facilitate better command and control. Post your ideas here. For example Glowing outlines on factories or lights on something which make certain buildings pop out. There's a mod which adds more lighting effects to power gens, Mex and storage, but I'd like more of this kind of thing built into the game. Another example A panel which shows what is being built and from this panel you can select, I.e. on this panel it might show 25 fabbers all assisting a nuke and it would show me how much energy and Mex is being used. If I click this on the panel it would take me to these fabbers and I could easily manage my resource drain.
if you can deal with the whole stuff cluttered on your view ... so here is my suggestion .. collapseable and pinable tabs! which you can position where you need it ... should work with java no problem, no?