First of all, I wouldn't worry a whole lot about the zooplankton levels. That's probably just showing that you are working with a eutrophic body of water, almost inevitable through the agricultural belt. That's just a sign of high productivity, plenty of nutrients going into the system (ag runoff, goose poop, etc.) and providing plenty of phytoplankton for the zooplankton to feed on.
Second, the yellow tint is possibly due to suspended colloidal clays, or excessive bottom disruption by the common carp or maybe even bullheads. There are chemicals available that will break up colloidal clays, but for the life of me can't remember what they are called. Carp eradication would do you no harm. There aren't any bullheads in there are there?
Third, it was hit on earlier, but you should think about harvesting some (lots) of those bluegills. Getting rid of some of the biomass should result in less resource competition and bigger gills. The little largemouth bass could be being out-competed by the small gills. Elimination of some smaller bluegills should free up some of the resources and allow the gills to get bigger and more largemouth bass recruitment to occur.
Hopefully this is of some help. I can't wait to hear how it all works out. Best of luck!
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