In preparation for the next Panda update, after losing some traffic during the Feb update, I improved a lot of less important pages on my site and removed several that had affiliate offers on them.
That was several weeks ago and though the removed pages disappeared from search right away the number of indexed pages is still being reported as including the pages on Google.com. Likewise they all still appear in GWT.
In fact I can't find a single Google service that accurately reflects changes made 3 weeks ago. In GWT for example, if I research my site for 3 DAYS ago all the pages removed 3 WEEKS ago are still there. The internal links page is all wrong too. etc.
Is Panda the cause? Do your site metrics no longer update until Panda does?