I have noticed recently that the reporting fuction in WMT that tells you who is linking to your site is no longer providing the complete picture.
As an example one site i work on is showing in WMT as having 64 links to it from other sites and details those websites. i have printed it off.
Meanwhile on both Yahoo and MSN they report the links found of between 310-325 and have printed that off.
On closer inspection many of the sites that are linking in that are NOT showing on WMT are good sites that would without doubt have been crawled and indexed by google. So why wouldnt they be showing? They dont have no follow or no index attributes and a good time period has gone hence Google would have found them imo.
Another sites i work on has a similar experience. It has 47 links in WMT yet 172 Yahoo/ MSN.
If they are not in WMT im assuming the site is not gaining any credit from them in Google.
Anyone else experienced this?