What is SEP detecting as? Is it cleaning them?
Best Practices for Troubleshooting Viruses on a Network
http://www.symantec.com/docs/TECH122466
Eliminating viruses and security risks
http://www.symantec.com/docs/HOWTO27280
Security Response recommendations for Symantec Endpoint Protection 12.1 settings
http://www.symantec.com/docs/TECH173752