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We fixed the inconsistency a different way. Instead of computing the numbers for all threads at page-load time, we still report the full number of comments, but when you expand the comment thread ...
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#1: Initial revision
We fixed the inconsistency a different way. Instead of computing the numbers for all threads at page-load time, we still report the full number of comments, but when you expand the comment thread you see that there are deleted ones, like this:  Expanding the thread now accounts for all of the comments so the numbers add up. I can't find an example right now to confirm, but I *believe* that if there are lots of comments and some early ones are deleted, you'll still see five (undeleted) comments along with the "skipping N" entries.