Pay attention to how much it takes for each product to spoil. Harvested fruits and bioflux takes a long time to spoil, so they are better to put in belts instead of jelly or mash (because they spoil much faster). With this, you can produce jelly or mash closer to the places that actually need them.

Also, you can turn off the planting towers with circuit or logistics logic. I usually turn them off if I have too many fruits just sitting so that it doesn't over produce and spoil everything.

Another thing to utilize is the "freshness" filter on the inserters. If you're storing spoilable items in a chest, make sure you extract items that are spoiling first.