Inline comments appearing beneath the same line are always ordered by ID. This makes some sense for single-threaded comments because chronological order is broadly a reasonable order, but is confusing for replies:
- Make multiple comments on a line.
- Reply to the comments several times, then reply to the replies, etc., producing a rich tapestry of discussion threads.
Comments are displayed in internal ID order, which is better than, say, random, but this makes threading ambiguous and is unquestionably less desirable than showing them in threaded order.
Providing some hints in the display treatment would also make inline threads easier to follow.