Given that I only have one referrer log file, if you get a lot more of one kind of hit than another then the lesser type will be pushed out completely. I came in this morning and there were no referrer’s listed, but there was a new comment, which indicated to me someone had linked over here.
The simple solution was to bump up $maxref in reflog.php. This will cause more to be saved in the log, but doesn’t change how many are displayed. I now save 400 instead of 100. There is probably a slow down each time reflog.php is executed, but hopefully not too much of one.