I would certainly agree with the previous: ".....not to worry about it".
I've seen this described a number of times as a 'cosmetic bug', unlikely to affect operation. This is certainly so in my case; I too have alleged 'damage' to items in the DPF's (as I suspect most of us do).
Presumably your only concern is that Java is working correctly. You can test this via:
http://www.java.com/en/download/help/testvm.xml and likewise update if required, which you will probably end up doing as a new version (for Windows) has become available recently (Version6/Update1).
You can likewise sometimes update items in the DPF via right click, but with no guarantee of eliminating the 'damaged' report (my latest fully functional Java 6_1 is likewise annotated!).