The key question that lead to this layout was "Where should the outputs go?". So important was this question that I was deleting tracks just to answer it. The small air output is a good example of this thinking: That bottom area looks perfect for a big output. Except there's a chunk of snow that would be in the way early on, and the faster I output early, the sooner I debond everything.

Now, is this min area? All I know is that Alchemical Jewel needs 25 hexes, and that puzzle actually gives you a centre atom to pivot with.