Snow Leopard vs Long list of permissions repairs from 10.5.8 update

Hello Everyone,
My question is more of result of technical curiosity than anything else.
This is the first Mac that I have ever owned, therefore it must be said that I have never upgraded the Mac OS X operating system before.
It is well documented here in these forums that the latest update to Leopard (10.5.8) resulted in a rather long list of permissions repairs for many users, including myself. I have read through most of the posts regarding this issue and have even taken the advice which several of you have given to "reapply the combo update twice without doing a permissions repair"
Nevertheless, the list is still there, and according to most users, as well Apple, these can be ignored.
Having said that, I fully intend to upgrade to Snow Leopard when it is released on Friday...But, when I do, should I assume that since the upgrade essentially installs a new operating system, the permissions data base will show up without any permissions errors? Or is the only way to clear the permissions list, a "nuke and pave" (erase and install) which purportedly is not an option on the upgrade disc.
Most of you out there are smarter than I am and much more experienced with the process so any expert advice you may have would be appreciated.
Thanks in advance,
joe

In all the articles you've read through, it doesn't seem you quite understand the issue.
When they put out 10.5.8, Apple replaced a lot of files with links to the originals. The repair database doesn't know that they are supposed to be links. So, permission repair reports them as different than what it expects. There is nothing wrong. Stop repairing permissions for no reason and they won't bother you.
There is nothing you can do to cause them to go away. When Apple puts out another update, they will hopefully update the database so that it recognizes those links and doesn't report them. However, I expect at some time in the future, stuff will change and the permission database will not get updated, and you will see similar notifications.

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Snow Leopard vs Long list of permissions repairs from 10.5.8 update

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