Googler, JohnMu, posted a Google Groups thread telling everyone that Google is aware of the verification issue in Google Webmaster Tools and not to worry. He said:
I just wanted to give a short heads-up that we're aware of the issue with site verification in Webmaster Tools. The team is working on it, so you should all be able to take a deeper look into your site's indexing through Webmaster Tools soon! If your site was unverified, it will generally have no impact on any settings or statistics in your account. They will all be back once your site is re-verified.
I'm sorry for the disruption and hope to see you all in our chat tomorrow!
So no need to worry, everything should return to normal, if you are impacted by this.
Forum discussion at Google Groups.