If you use CA Identity Portal Access Rights with Application Groups and have more than 50 Applications, closing the Application Groups only show the first 50 applications and the rest are missing. Re-opening the Application Groups and moving the scrollbar removes the problem.
This was a defect in the product, the fix for this defect is included in the Identity Portal 14.0.1 CP3 Cumulative Patch.
It is published in the "Release Notes - 14.0 Cumulative Patches" page of Identity Portal 14.0 documentation.
Download the cumulative patch, CP-IP-140001-0003, from the "Identity Portal Server Cumulative Patches" table. The cumulative patch has an equivalent Virtual Appliance patch, CP-IPV-140001-0003, to be deployed on Virtual Appliance 14.0.1.