Hello,
Please check the Following Symantec Articles and Work on the Steps to make the necessary changes provided within:
Continuous pop-up windows when opening reports in the Endpoint Protection Manager after upgrading to Internet Explorer 9
Not able to download and login to the Java remote console when using Internet Explorer 9
Managed clients no longer receive updates after Internet Explorer 9 install
Clients cannot get update the definitions from SEPM although the communication is ok.
Hope this would be helpful!!!