As you've figured out, you have a bunch of valves that direct water to various places. From what you described, it sure sounds like water is not being directed to the in-floor cleaning system; if it were, I would think you should get a pressure reading at the gear unit. Is the valve in picture 003 the one that controls the flow between the waterfall and deep end outlet?
I see a couple possibilities:
1) no water to the in-floor system - valves are in the wrong places
2) in-floor system is getting pressure (with a broken gauge showing zero), and the gears are stuck in the same place (the deep end return outlet).
Can you post some pictures of the equipment area, deep end outlet, etc?