Your tiny black bugs clustering at stem bases are almost certainly black aphids. Water sprays are your first, best defense—and you're already doing this effectively.
Aphids rarely attack basil, but if they do, use only water sprays—oils and soaps affect basil's flavor. The shallot bulbs themselves are safe unless growing above ground (unusual).
Continue daily water blasts; escalate only if damage becomes severe. Your vigilance is the best control!
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Harvesting Burpless Cucumbers: Size, Yellowing, and Leaf Dieback
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