misconceptions
"The nature of this article and other others lately suggests that TOR is less anonymous than anyone really thinks it is."
You nailed something there. Except for the "anyone". Lots of people know the truth about Tor, but unfortunately many people also think only in absolutes and so are unable to grasp the basic ideas of security and anonymity - neither of which are absolutes.
It is true that Tor provides anonymity, it is a tool for that, but it is not true that that anonymity is absolute. Until someone understands the seemingly simple ideas that nothing is 100% and "never say never", they will not understand this software. Tor is simply a tool, and for some things the best available at the moment. Hopefully it will improve with time, and hopefully a lot of people will eventually learn to not trust any software absolutely.