Yeah adding some Mechanical filter is a good point. I'm considering adding a good filtering sponge to the first chamber and some aquarium floss underneath the sponge for filtering, second chamber maybe some activated charcoal and zeolite in separate stockings and last chamber some type of ceramic media, haven't decided yet.
Also I'm considering using a overflow weir on my tanks ao that my water will only drain to a certain amount in the tanks and because I'm doing a drip system I'm planning to add a overflow to my sump in order to prevent the sump from over flowing, that water in turn will run into a container which I will use to water my veggies and plant when it is filled, maybe even later I will do a aquaponics system in the future but I will definitely look into a check valve as it could prevent other problems.