"can't it just 'flow over the top' of some of the biomedia".....
you are not considering the effect of diffusion in a solution. diffusion can even cause a measurable pressure difference across a membrane (which is then actually osmosis). What all that means is whatever concentration of ammonia is in one part of the water in your tank is also in every other part of the water in your tank.
So it doesn't matter if water "flows over the top" of the biomedia. If water touches the biomedia, then that water will have the exact same concentration of ammonia for your bacteria to take up as any other water that is bypassing it.
We have pumps and high circulation, and ammonia is being secreted into the water from fish that swim around the display tank. That ammonia then has to be pushed up and over the wiers on the overflows by the tank water, then dropped into the sump--plenty of movement.
Even without all that movement, there would still be diffusion of ammonia throughout the tank water--think about that commercial where they pour red wine into a glass of water. Or blue dye in a glass of water.
https://en.wikipedia.org/wiki/Diffusion#/media/File:Blausen_0315_Diffusion.png