I'm noticing characters being replaced by boxed question marks. It's happening most often for emoji and accented characters, I think, and I've seen it in Safari, Chrome and the system dictionary.
I'm running High Sierra 10.13.1 (17B48) on a mid-2014 MBP. No software updates pending.
Best Answer
The font does not contain a glyph for that particular IPA symbol, and the font substitution algorithm failed to catch it. Report it as a bug.