Chetan, I am experiencing this same problem with SEP 12.1 RU4 MP1a and it is extremely frustrating. Support has been of no help to us and just run us around in circles with changes to anti-virus policies that are completely unrelated to the actual issue.
I have narrowed down the problem to a specific scenario: A Server 2012 Standard on an HP DL385p Gen8 server with broadcom NICs and any Hyper-V VM guests on this server. I have Dell poweredge servers and all of them are fine. The problem is with the firewall on the server initiating the file copy to another server (disabling the firewall on the destination server has no effect)
Both the Host and the Guests were slow. I switched the host to Basic protection which removed the firewall and improved performance for the host, but the guests are still slow. Changing Chimney Offloading and related settings did not appear to make a difference.
Copying with Firewall enabled is in the 300Kbps range and is 10Mbps with it disabled - even when ALL rules for the firewall are set to allow the problem occurs. The issue began sometime after upgrading from 12.1.2 (not sure in which release of 12.1.3 or 12.1.4, but probably the latter)
This appears related to the SNAC network driver as best as I can tell.
Other possibly relevant information: Backup Exec agent for backup exec 2014 is also installed on this server and VM Guests including the related pure disk drivers. Backup Exec 2013 experienced the same problems after the SEP upgrade, so the issue is definitely with with SEP.
PLEASE help us resolve this problem!!! I have logs and can perform any testing you might need to get a proper cause for this - just let me know what you need. Case #06959284