This is what I have seen so far.
My large lily pond went native, wall to wall lilies many out of pots for 5 or 6 year.. 5 koi and hundreds of goldfish thrived. When we pulled the lilies we had the typical lily root smell but not much hydrogen sulfide. I know this is subjective and one pond does not provide enough data. I am not asking or suggesting people grow wall to wall bare root lilies.
We pulled the plants then drained the pond to catch the fish. If the gas problem for bare roots was as bad as you are saying we should have had a pond full of dead and dying fish. I don't know.
Maybe the fish keep the roots sufficiently disturbed that large gas pockets do not form. We both know how koi love to dig in pots and I expect the do the same with the bare roots but more frequently.
One key to not having gas problem is to ensure that the water is vigorously degassed. Even without great circulation disolved gas will move to water with lower gas concentration, it disperses.
There are many different ways to keep ponds.