FYI: I was able to fix this. Now only [tags] at the beginning and end of the post title will be converted to flairs; anything in the middle will remain in brackets. The only edge case that remains would be if the first or last word of the title is bracketed, but that’s an edge case I can live with.

Also, titles that are completely bracketed (e.g. [Jaws theme intensifies]) will no longer be converted to a flair.

No ETA on 1.4.16 release yet, but this fix will be included in that.