Large sorting machine connected to an ender chest, so what ever you put in that chest gets stored in its correct place.
Anything useless gets turned to scrap, the scrap then either turn to scrap-boxes, auto used them and collect dropped stuff, or use the scrap to make UU matter.
Large rail system between areas.
Under water city using only force-fields, which will need to be powered constantly (using something renewable)
Automated tree farm
Automated food farm, which then cans the food. Will need a place players can then drop off empty cans.
Thats all i got so far, bit brain dead today.