Here's what I was talking about in post #2, these apps are in fact system apps. Which my case as you can see from the screen shot below I have two clocks version 2.0.3. The reason for this as I mentioned before I had 'frozen' the JB 4.1.1 version. When I installed the JB 4.2 version it took the identity of the missing system app, which the 4.2 version is the top listed in the screenshot and 4.1.1 is the lower, which both have a slightly different I icon. *As a precaution to keep the original it would be a good idea to freeze the original before flashing the 4.2 versions, just to be safe. If after flashing the 4.2 and if it has a different system name, then it should be safe to unfreeze the 4.1.1 version.
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