Well, that's an interesting list - one wonders why Apple doesn't modify Disk Utility to avoid them.
Many of my errors are indeed on the list. Those that aren't include:
Permissions differ on "System/Library/Java/JavaVirtualMachines/1.6.0.jdk/Contents/Classes/jconsole.jar", should be lrwxr-xr-x , they are lrw-r--r-- .
User differs on "System/Library/Java/JavaVirtualMachines/1.6.0.jdk/Contents/Home/lib", should be 0, user is 95.
Permissions differ on "System/Library/Java/Support/Deploy.bundle/Contents/Resources/JavaPluginCocoa.bundle/Contents/Resources/Java/deploy.jar", should be lrwxr-xr-x , they are lrw-r--r-- .
Permissions differ on "System/Library/CoreServices/RemoteManagement/AppleVNCServer.bundle/Contents/Support/LockScreenLeopard386.app/Contents/Resources/Italian.lproj/MainMenu.nib", should be drwxr-xr-x , they are -rwxr-xr-x
(there are well over a dozen that terminate in MainMenu.nib)
Permissions differ on "System/Library/CoreServices/RemoteManagement/ARDAgent.app/Contents/Support/Remote Desktop Message.app/Contents/Resources/Japanese.lproj/UIAgent.nib", should be drwxr-xr-x , they are -rwxr-xr-x .
and many more
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