Some rambling thoughts:
Goji berry is closely related to species that can be invasive (by seed) in some climates. Just keep a watch.
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When your lily seedlings are planted en masse, don't forget that they will need more fertilizer (and water). And don't necessarily transplant only the largest ones. True, they should be the most vigorous in the garden too, but you could be missing some very worthy creations whose characteristics are attached only to less rambunctious genes. What I am saying is that the less rambunctious group may, as a whole, be pinks (for instance), while the vigorous ones be predominantly yellow (for instance).
When I planted Pard's seeds, I planted the whole pots of seedlings in the garden. (Seedlings weren't quite as numerous as yours, though.) As they grew, the bulbs pull themselves apart in the soil, and I have dug the clumps, removing the blooming ones to keep or give away, and replant the remaining to see what is left.
Maybe I would divide your "masses" in half or thirds, and do the same.
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If you've sterilized the soil, Pard, maybe I would enclose it in something to keep your "indigenous" gnat population from reinfection, at least until the most vulnerable stage is past.
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Cinnamon's fungicidal properties for the oomycete class of fungi is known. I don't think it matters if you have real cinnamon or the cassia (what is in the grocery store in the US). I much prefer the cassia for baking.
Anyway, I don't know if there has actually been any scientific research using cinnamon as a fungus gnaticide. But there seems to be a lot of anecdotal evidence of results. The actual mode of action I would rate as unknown.