We are seeing some quite strange query data in Google WMT. Keywords which are getting impression and clicks one month disappear 2 months later (but doing a bit of rank checking proves our site still ranks for many of those keywords) This doesn't add up.
So I've been doing a bit of research:
There are a couple of popular (and conflicting) blog posts about the value of Google WMT query data.
http://www.portent.com/blog/analytics/google-webmaster-tools-query-data-is-worthless.htm
In response:
It seems pretty clear that WMT query data is becoming less valuable because of secure search / not provided and limited visibility of keyword data. Google apparently promised some solution to this earlier this year.
http://www.wordstream.com/blog/ws/2014/03/17/keyword-not-provided
Have there been any developments?
One thing that I have picked up:
Google publicly say that "Webmaster Tools shows data for the top 2,000 queries that returned your site at least once in search results"
https://support.google.com/webmasters/answer/35252?hl=en
However our own WMT account reflects over 14000 queries for the last 30 days. Is Google's documentation out of date?