Not sure if this would help with Chrome, but this is what I had with Firefox:

It gave me the un-escapable certificate query, I got past it the first time, but second time I updated the site the query re-appeared.
The button that allows you to make exception and proceed was disabled while it stated the certificate was already passed.

Simply refreshing the browser was enough to proceed to the site. Just a thing to try on Chrome...
After a few times of these queries they stopped coming even they appeared on the tabs I already had done refreshing...
Perhaps the reappearing of the query had something to do with cache.