A Turning Point.. I regenerated the keystore and the application started working with Firefox. But it is still not working with IE. On further search, came across this page.

http://kb.adobe.com/selfservice/view...7b5c&sliceId=2

There are two steps in fixing it.
1. Turning off the no-cache settings
2. Manually installing the SSL certificate.

I did step 2. But how do I do step 1?