Mass file deletion after update due to heuristic false positives

NIS did a background on 11 July after auto-updating to the latest version. Disaster followed. According to its history, NIS deleted around 1300 files and quarantined another 200 or so. It was also suggesting deletion of another 300 files. Most (but not all) are tagged as infected with Suspicious.Epi.2.

After updating NIS I restored a couple of files and scanned them - no problem with them. I submitted one for inspection by Symantec. It was uninfected. I refused deletion of the 300 files it was warning about then ran a full scan. Again no problems.

I clearly can't recover the 1300 deleted files but Windows seems to work ok, so I hope no critical system files have gone. Does NIS quarantine those rather than delete them?

An online support technician says there is no way to bulk-restore files from quarantine. Restoring files is incredibly tedious as NIS doesn't even seem to be able to put them back in the right place every time. The technician tried to help but was making a hash of things so I terminated the session.

Any magic fixes out there?