the better drainage will reduce mold risk. it will not impact which fertilizers you can use.
Can use perlite for that, too. Clay pebbles are expensive, eh? They are so bulky they get in the way of roots -- though for use at the bottom of a pot, that particular drawback is irrelevant. I think clay pebbles are popular because they "look cool" in hydro context, lol. just as you don't want large chunks of wood, you don't want large, solid objects in your substrate.
if your pots are on 'pot elevators' or otherwise held up and away from whatever drains out of them, that's really all you need to do. Don't let them set in their piss and all is well.
Stop worrying about the marketing term "organic." It mean nothing to reality.