Your clean up crew will take care of the fish waste. Crabs, snails, starfish, etc are what you need. Stirring the sand is a big giant no-no.
Snails are arguably or maybe not so arguably the most important part of your CUC (clean up crew). Make sure sure you have enough of them. Crabs are nice but can be a pain at times. There are some crabs, snails, starfish, etc that will take care of stirring the top layer of sand which is all you need. You don't necessarily need ones that stir up the sand, it just fun to watch.
If you stir up the sand, you may end up stirring the DSB
(deep sea bed). If you do that, you risk releasing toxic gases into your tank.
You can go to liveaquaria.com and look at their recommended CUC for your tank size to give you an idea of what to do.
What size tank and CUC do you have now?