Google's slow reindexing

We had a horrible bug in ZATEMAS which was supposed to return 403 to search engines which accessed the "Profile" page. However it returned 403 for any request to the site. This means that we were removed from the search index (and rightfully so).

The bug is now fixed for more than 5 days, and Google is happily reindexing our site... except for the homepage! Go, try searching for ZATEMAS: since that's the name of our service, we rightfully were ranked 1 as the search result. Not so anymore, the homepage is just ignored.

I have no idea how to remedy this. I've done some modifications to attempt to hint Google that, really, there's no need to index 9000+ log pages for evaluator (which, frankly, I have no idea why they are public ... we'll look into that). But still it's examining all the unnecessary pages.

I'm not keen on submitting for reconsideration because we're actually serving a bit different pages to Google -- unregistered users don't get access to text for problems on our evaluator, and we've recognized several bots as "registered" users. Google may claim it to be cloaking. This was supposed to be sort-of a temporary measure until we allow non-registered users to view task text, but still...

Anyways, summary, Google and other bots are losing time crawling unnecessary pages,  while the one most important (homepage) is not indexed.