DiskWarrior not fixing things

I put new ram in my G5 last month. Things were fine until a couple days ago. I started getting kernel panics and was unable to run superduper because of bad permissions. Diskutility was unable to fix persmissions. So I bought DiskWarrior and removed the new ram.
DiskWarrior was able to fix permissions to the point where I could run a backup, but there are still many errors that it will not fix. I am no longer getting kernel panics but superduper has now put those errors onto the backup.
Any suggestions on how I can repair the remaining permissions?
thanks

Those permissions are probably the ones you can ignore:
Permissions you can ignore on 10.5:
http://support.apple.com/kb/TS1448?viewlocale=en_US
using 'should be -rw-r--r-- , they are lrw-r--r--' as an example, you will see the that the permissions are not changed, but the | indicates a different location. This is because an update to Leopard changed the location of a number of system components.

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