Lots to consider with this topic. I will comment on your subjects in order of my knowledge about the subjects.
1. Corkscrew eelgrass CEG. I am pretty sure it will not grow in your SD climate - too cold, too long. Look in local lakes for native short growing submerged plants. If your water is fairly soft (low alkalinity) look in local lakes for other species of short plants in the shallows and beach areas plants similar to lake quillwort technical name Isotes lacustris. Saggitaria subulata (dwarf saggitaria) may grow in your climate? Plant some spike rush in your shallow waterways so these areas are not choked with cattails and other nuisance vegetation. I prefer creeping spike rush (Eleocharis palustris) for shallow water and Least spike rush (E. acicularis)for shorelines. All your shallow water areas will tend to become weed infested. Get minimal or less problematic plants established early.
http://www.anderssalesjo.com/?id=2606&lang=42https://www.uwgb.edu/biodiversity/herbarium/pteridophytes/isolac01.htmhttps://gobotany.newenglandwild.org/species/isoetes/lacustris/ http://www.biopix.com/quillwort-isoetes-lacustris_photo-47015.aspx2. Your flooded wheat grass will not last long, a year at most, as terrestrial grasses as cover and will quickly decompose and provide little long term benefit. Small tree twigs don't even last long when submerged.
3. What is "baby pondweed? I do not recognize the name. Do you have a technical name for it??.
4. Current GSF could become a management problem. You may want to try and manage the fishery with them or kill off and start over. Renovating can always be done later, thus you may want to work with them to learn more about managing with them. Tough decision. Dense weed growths will provide then and all your small fishes shelter, maybe too much shelter, from predation.
5. Initially I would not stock BG if you are mainly interested in having a WE and or SMB fishery. Rely on the GSF as your main sunfish. Since you have GSF, I would seriously consider periodically stocking HBG. They will provide many of the benefits of growing larger panfish. If HSB are fed pellets the GSF will also grow fast to harvestable sizes. a very few YP may learn to eat pellets but don't count on that happening unless you buy pellet trained YP. Backcrossing of HBG with the GSF will likely occur. But since you already have GSF the sunfish community balance is already compromised. HBG will provide big panfish and likely not a lot of more trash panfish than what the GSF alone will contribute.
6. I think the predator species in your pond will need to be numerous almost overpopulated to control sunfish and YP in a pond with fairly large weedy areas. Don't expect your predators to get large when they are numerous enough to adequately control small sunfish in a weedy pond. Think of your predators as smaller fish controlling tools and not larger trophies. With this philosophy I think you should initially stock more larger 8" WE (maybe 40-60/ac) and fewer WE fry. With the 2014 GSF spawn IMO you will need strong predation pressure to control them. GSF are prolific. Supplemental WE stocking should not be fry but fingerlings or 4"-6" ers or larger. I would annually keep adding predators until you see low numbers of young GSF in the summer and fall fish trapping samples. Use minnow traps to monitor your small fish survival. GSF readily enter unbaited fish traps.
7. IMO your YP stocking plan is weak. I would initially never stock YP fry. Since you already have GSF you will have a huge GSF spawn and survival. I would stock at least 100 up to 200YP per acre. Stock all sizes from 2" to the large ones suggested by Jack. If you can get YP before they spawn stock more of the larger sizes 2"-4" 5"-7" and 8"-10. Skew the numbers toward the large sizes. This will not be cheap but neither will be renovating the pond. You want to have heavy predation on this year's spawn esp the GSF spawn.
8. Before adding LMB to control the GSF, which you eventually may have to do, try smallmouths and or HSB. If the smallies do not work then resort to LMB. Weedy areas will hinder predators feeding on small GSF and YP. Which is why I think you will need an over abundance of small maybe stunted predators. Walleye at 14" are just as tasty as 16"-18"ers. Although you may want to protect WE and harvest the larger YP, GSF or maybe HBG. YP can maintain a good population with weeds beds as cover (DrDave Willis personal communication).
9. With abundant GSF you may have to resort to pellet feeding the panfish to get good growth for harvest due to overcrowding of GSF & YP. Note wild YP rarely will eat pellets unless 'trained'.
10. I would not stock BCP unless you revovate the pond. GSF will cause you enough fishery headaches and IMO you do not need overpopulated BCP to add to your stress. I don't have a lot of experience with BCP but I don't think they will provide very much control of your YOY GSF esp in weedy situations.
