Aside from wiring issues and timing issues my factory is up and running. I originally started with a small line, but then tried to make a massive facility and fill in around it (failed badly). So This time around I decided to design the factory layout first and then build a building around it.
My factory design so far
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Factory 2.0
http://youtu.be/unt7MvTxa9g?hd=1Still needs a bunch of work, but this is why I love all the mods that I have. it is really an evolution through building.