Repairing permissions is rarely if ever needed. I'm surprised to see some of the knowledgeable people here posting that they bother. Same story with the functions of Applejack, OSX takes care of all of these on it's own. But then if you just like to pop the hood and tinker.
Excerpted from
http://support.apple.com/kb/ht1452Does Disk Utility check permissions on all files?Files that aren't installed as part of an Apple-originated installer package are not listed in a receipt and therefore are not checked. For example, if you install an application using a non-Apple installer application, or by copying it from a disk image, network volume, or other disk instead of installing it via Installer, a receipt file isn't created. This is expected. Some applications are designed to be installed in one of those ways.
Also, certain files whose permissions can be changed during normal usage without affecting their function are intentionally not checked.
Disk Warrior has some extended capability vs Disk Utility...
That would be the understatement of the decade. DW is a powerful tool. DU is a completely different tool.