There have been others around that went the hydroponic route.
Even with mine and pea gravel I don't get a anaerobic environment. I dug down to the bottom a few years ago when someone suggested it would stink horribly since it was anaerobic. But nope normal pond water smell.
The lilies............they do stink when I dig into that clay to groom them!
I have my bog non running all winter, around 5 months. When I turn it one there is no horrible smell when it starts up, just normal pond water smell, within a day or so the pond water is back to crystal clear. No damage to the bog or fish.