Never said you were the problem. In fact, I was pretty overt in saying we need to communicate the function better. That said, it seems to be a function you wouldn't require. However, someone like steve who says Hubski doesn't even have his email, relies pretty heavily on it. Perhaps it's one of the HUGE laundry list of optional settings.
I do like the idea that if I reply to something it automatically gets removed from my notifications. We should have that.
You might be surprised how functional it is though. You can ignore something for a day, come back and reply. It removes the sense of urgency I get from email. I know that I'll still see the comment. That said, it also makes me more lazy about my replies. Case in point, I owe rezzeJ a reply on a post I made and it's been making me feel terrible that I've not yet. But it requires time and thought. If I didn't have notifications, I probably would have sat down right away and replied.
-End rambling thoughts.