The imbalance in the flow between the boxes is due to small differences the inlet weir heights relative to the tank water level. It should not matter about the relative elevations of the stand pipes and changing them is not going to help balance the boxes. That is the problem with dual overflows. It is difficult to get the tank and overflow weirs perfectly level so the flows into each box are balanced. I think your standpipe elevations are fine
To keep the waterfall of a Herbie quiet, you should have a small amount of water going over the overflow all the time. If there is noise coming from the sump, it is likely from a combination of low flow through one of the siphons and the gate/ball valve located too high above the water level in the sump. This creates a negative pressure downstream of the valve that causes dissolved air to degas and get trapped around the valve creating noise. There is not enough fluid velocity to keep it flushed out. It is not operating as a liquid full siphon. You either need to increase the flow or locate the valve down near the water level of the sump.