Getting SUID has been changed and won't be fixed when using Disk Repair utility.

While attempting a disk repair, the first message that appears in the string is, "Warning: SUID file System/Library/CoreS...has been modified and will not be repaired." Is this a bad thing? If so, how do I fix it? My computer has been taking forever to startup and freezing quite often.

The long answer is that Apple doesn't update the permissions database at every system update. Since things change in the update that the permissions database doesn't know about, Repair Permissions flags them.
Repairing permissions is a long fought battle. There are those that do and those that don't. I think it's just voodoo. The only time I repair permissions is if I get errors indicating that a file cannot be read or app crashes when it is accessing something in the system level (if I can tell). Repair permissions only affects the system folders, not your home folder.

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