Nick, it might help to do a schematic of the layout so you (and everyone else) can see the track connections without all the convolutions.
As far as reversing sections go, it might be best to make the track from E>F>C>D>E all part of the red section. That is just a loop. Make all of the green section your reversing section. That would work, but you can't have multiple trains crossing the boundaries at the same time. I'd use a PSX-AR for the reversing section, it would serve as both a reverser and a circuit breaker.
Tim Rumph
Lancaster, SC
Tim