Nofollow links have been showing in the output of link: and WMT practically since the begining of time. That does NOT mean they are counted. They are simply showing a sample of backlinks that they know about, NOT which links are counted. Google doesn't want you to know whether or not they are actually counting a particular link which is why they omit links (only show a sample) and show links that they don't count (like nofollow and links from URLs under penalty). Just because the sun rises and sets on the horizon does not mean the earth is flat. Just because the sky is blue doesn't mean their is an ocean over our head. Don't jump to conclusions.