After restore from TM Back up permissions are weird

Hi I restored my system after wiping a hard disk, reinstalling clean system and then upgrading to 10.6.6. I used Set Up assistant to restore from the TM backup. Everything is working OK but I have weird permission settings on many restored files. It means you have to enter admin password for moving and deleting files within the same disk.
If you do Get Info my user name has read and write access as does 'Everyone;, but there is a second everyone listed marked as 'Custom Access'.
If you change this in the individual file to 'Read & Write' you can then delete or move the file normally. Applying permission to enclosed items from an enclosing folder doesn't sort this , neither does repairing permissions with Disk Utility. To sort it I would have to go through every single file individually.
IS there a way of fixing this without having to reinstall everything again?
Would rebuild directory with Disk Warrior fix this?
Best
Tommy Banana

There is a method to reset home folder permissions using the Install DVD. I know Apple has an article on it, but I never can find it. Here is the same thing from MacFixIt: http://reviews.cnet.com/8301-13727_7-10329971-263.html
Note that the little apostrophe-like marks on the second command are backticks. On a US keyboard, it is the key to the left of the 1, along with ~
It also references the Leopard DVD, but this works the same with the Snow Leopard DVD.

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