Had a similar problem and managed to solve it.
First of all, try to validate your fonts. In the Font Book app select all fonts, then File > Validate Selection.
Also it is worth to try to resolve duplicates. In Font Book app File > Resolve Duplicates.
More about Font Book here
If nothing helped, then open /Library/Fonts and remove all SF- fonts and then download the latest version of SF fonts from Apple.
Artem_Gaoyun
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