[Edit: Issues, Bugs, and Requested Features should be tracked at Google Code, not here -- matt, 2010-04-23]
Less Wrong is still under construction. Please post any bugs or issues with Less Wrong to this thread. Try to keep each comment thread a clean discussion of each bug or issue.
Requested features... sure, go ahead, but bear in mind we may not be able to implement for a while.
Both comments and posts with below the threshold rating should still (have an option to) show wherever the good-reputation notes show, just in the collapsed state and with a low-reputation warning.
If I remember correctly, the down-voted comments currently still show in the comment thread, but in collapsed state (there are either too few of those so I didn't see them lately, or it's incorrect and they do completely disappear), while the downvoted articles don't show anywhere. It's confusing finding a comment in the "Comments" stream on an article that you can't find being mentioned anywhere.
Downvoted atricles don't show in the "What's new" list, but they show in the "Recent Posts" list.