Repairing permissions after 10.5.8 update extreme oops maybe???

Ok I understand that there is still the issue of Repairing permissions regarding hard code links no big deal. Apple still has not fixed this in this update.
The problem that I have at the moment is understanding why the dbase is not updated properly it appears.
After applying the update to two separate machines both intel based and running Repair permissions through Disk Utility which is what I always do after any os update, there were some very strange oddities that pertains to core files and even after reboots and rechecking seferal times there is no change.
Someone at Apple messed up I think and did not update the permissions dbase during or after the update. I also used the Combo updater versus the smaller regular update as I always do to to avoid some intermittent occasional install problems some tend to see when using the smaller updaters.
Anyone else seeing this and how big of an issue is it to have it show for core files permissiona "should be ?--------- ," ??
Below is an example and is on both an iMac 24" and a MacBook Pro:
Reading permissions database.
Reading the permissions database can take several minutes.
...... I cut out the standard stuff we are used to seeing with the links "l" permisions
Permissions differ on "System/Library/Frameworks/AppKit.framework/Versions/C/_CodeSignature/CodeResou rces", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Frameworks/CoreServices.framework/Versions/A/Frameworks/CarbonC ore.framework/Versions/A/_CodeSignature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Frameworks/ApplicationServices.framework/Versions/A/Frameworks/ CoreGraphics.framework/Versions/A/_CodeSignature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/PrivateFrameworks/DotMacSyncManager.framework/Versions/A/_CodeS ignature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/PrivateFrameworks/DotMacSyncManager.framework/Versions/A/Resour ces/DotMacSyncHelper.app/Contents/_CodeSignature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/PrivateFrameworks/DotMacSyncManager.framework/Versions/A/Resour ces/dotmacsyncui.app/Contents/_CodeSignature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/PrivateFrameworks/DotMacLegacy.framework/Versions/A/_CodeSignat ure/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/_CodeSignature/CodeDirecto ry", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/_CodeSignature/CodeResourc es", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/_CodeSignature/CodeSignatu re", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/AppleUSBEHCI.kext/ Contents/_CodeSignature/CodeDirectory", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/AppleUSBEHCI.kext/ Contents/_CodeSignature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/AppleUSBEHCI.kext/ Contents/_CodeSignature/CodeSignature", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/AppleUSBHub.kext/C ontents/_CodeSignature/CodeDirectory", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/AppleUSBHub.kext/C ontents/_CodeSignature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/AppleUSBHub.kext/C ontents/_CodeSignature/CodeSignature", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/AppleUSBMergeNub.k ext/Contents/_CodeSignature/CodeDirectory", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/AppleUSBMergeNub.k ext/Contents/_CodeSignature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/AppleUSBMergeNub.k ext/Contents/_CodeSignature/CodeSignature", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/AppleUSBOHCI.kext/ Contents/_CodeSignature/CodeDirectory", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/AppleUSBOHCI.kext/ Contents/_CodeSignature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/AppleUSBOHCI.kext/ Contents/_CodeSignature/CodeSignature", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/AppleUSBOpticalMou se.kext/Contents/_CodeSignature/CodeDirectory", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/AppleUSBOpticalMou se.kext/Contents/_CodeSignature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/AppleUSBOpticalMou se.kext/Contents/_CodeSignature/CodeSignature", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/AppleUSBUHCI.kext/ Contents/_CodeSignature/CodeDirectory", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/AppleUSBUHCI.kext/ Contents/_CodeSignature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/AppleUSBUHCI.kext/ Contents/_CodeSignature/CodeSignature", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/IOUSBCompositeDriv er.kext/Contents/_CodeSignature/CodeDirectory", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/IOUSBCompositeDriv er.kext/Contents/_CodeSignature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/IOUSBCompositeDriv er.kext/Contents/_CodeSignature/CodeSignature", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/IOUSBHIDDriver.kex t/Contents/_CodeSignature/CodeDirectory", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/IOUSBHIDDriver.kex t/Contents/_CodeSignature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/IOUSBHIDDriver.kex t/Contents/_CodeSignature/CodeSignature", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/IOUSBLib.bundle/Co ntents/_CodeSignature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/IOUSBUserClient.ke xt/Contents/_CodeSignature/CodeDirectory", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/IOUSBUserClient.ke xt/Contents/_CodeSignature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBFamily.kext/Contents/PlugIns/IOUSBUserClient.ke xt/Contents/_CodeSignature/CodeSignature", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBMassStorageClass.kext/Contents/_CodeSignature/C odeDirectory", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBMassStorageClass.kext/Contents/_CodeSignature/C odeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Extensions/IOUSBMassStorageClass.kext/Contents/_CodeSignature/C odeSignature", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/CoreServices/CCacheServer.app/Contents/_CodeSignature/CodeResou rces", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/CoreServices/Kerberos.app/Contents/_CodeSignature/CodeResources ", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/CoreServices/KerberosAgent.app/Contents/_CodeSignature/CodeReso urces", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/Frameworks/Kerberos.framework/Versions/A/_CodeSignature/CodeRes ources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/KerberosPlugins/KerberosDatabasePlugins/db2.bundle/Contents/_Co deSignature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/KerberosPlugins/KerberosDatabasePlugins/kldap.bundle/Contents/_ CodeSignature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/SystemProfiler/SPDisplaysReporter.spreporter/Contents/_CodeSign ature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/CoreServices/Screen Sharing.app/Contents/_CodeSignature/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions differ on "System/Library/PrivateFrameworks/ScreenSharing.framework/Versions/A/_CodeSigna ture/CodeResources", should be ?--------- , they are -rw-r--r-- .
Permissions repair complete

Yea it is strange, I did not have the time on the two operating systems to do a proper backup so I can not go back as you did.
I did reapply the delta update though over the top of one of the Combos and although I ended up with less apparently than with the original combo update there were still several.
One thing I did do was to go to the file level of this one which now reads "System/Library/Frameworks/CoreServices.framework/Versions/A/Frameworks/CarbonC ore.framework/Versions/A/_CodeSignature/CodeResources", should be ?--------- , they are ---------
When inspecting that one the in the info window it now shows no more system or wheel and only everyone with the item marked as no access.
Considering that this is within the folder now called "_CodeSignature" and the root folder above this folder which is "A" has a CodeResources file inside it which has all the normal permissions set properly. I am wondering if this is something that was actually moved to this new folder instead of deleted and that the permissions tool may be looking at this file as it would with the parent folder if that makes sense. If this is part of the security updates portion why wouldn't Apple just remove it or is there something else going on that I am missing.
On the other side to note is that all of the files that are giving this error with permissions in the core files are all inside a folder called "_CodeSignature".
This may actually be nothing to worry about as it may be a way for the security patches to work properly to ensure the corrected resources are in place, If so though why are they not getting deleted with the updates as one would expect and why would this keep reappearing constantly and are these files in the "_CodeSignature" folders actually able to be trashed manually if Apple doesn't need them there and if they do then why are they set for no access?
Confusion is a wonderment uh?

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pato

appreciate your input, but where in that list do you see any of the following items which were changed?
> newgrp, rlogin, rsh, root directories, rcp, login, keychain files ???
with all due respect, maybe someone a bit more knowledgable could weigh in on this?
thanks,
pato

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You are absolutely correct. I got it backwards.
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Message was edited by: pmau
Fixed attribution to point to the original poster. Sorry.

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Had that annoying spinning beach ball today, so I used software update and then repaired permissions after. Never had a message like this before in all my mac years:
Warning: SUID file "System/Library/CoreServices/Finder.app/Contents/Resources/OwnerGroupTool" has been modified and will not be repaired.
Warning: SUID file "usr/bin/lppaswd" has been modified and will not be repaired.
No other permissions were repaired.
Um . . . HUH? I have two firewalls on this thing and have to approve even outgoing print jobs manually. I'd be surprised if I had anyone get n here, but anything is possible. I sync to mobileme and my iphone and ipod video. Have a wireless keyboard and mouse, but no other bluetooth devices. My wireless network is hidden and secured with a password. . .
I'm the only user, the computer is only a few weeks old.
Should I be worried? Should I be deleting something? Would love some thoughts and opinions!
Thanks in advance!
Sharon

A commonly known situation. See Mac OS X 10.5- Disk Utility's Repair Disk Permissions reports issues with SUID files.
No, you need not be worried.

All files on Boot Camp partition mysteriously erased after 10.5.3 update

My wife's MBP 2.4 was running 10.5.2 with a Boot Camp installation of Windows XP. The other night she upgraded to 10.5.3 and everything on her Boot Camp partition was erased somehow.
She spent most of the day working in Windows. During the day someone gave her a usb key with some photos on it that when she plugged it in to her computer something came up in Turkish (she is presently in Turkey) that her friend said she should just close the window and she did. She shut down and switched over to the 10.5.2 install, repaired permissions, and then ran software update to go to 10.5.3. I believe her Boot Camp is updated to the most recent version on the PC side. After the update completed she went to go back into Windows and could not start up in it. It turned out somehow everything on the Boot Camp partition was gone. The partition name was the same as it had been previously and it shouls as all of the space available. None of the material was in the Trash on the Mac side and she had quite a build up in the Trash folder - so it wasn't put in the Trash and then the Trash emptied. It was as if someone had reformatted the partition.
I would chalk this up to user error when she was in disk utility maybe or someone in her studio screwing around with her computer but the same thing apparently happened to one of her classmates shortly before leaving for Turkey. Anyone heard of this happening or have any thoughts?
I had her saving all data to the Mac partition so luckily no data was lost - we just need to reinstall the programs to the Windows partition.
Thanks!

Nope, that didn't happen. The mbp has been loaded directly with Leopard since release day, and had few problems. I've done all the updates from 10.5.0 without any issues. But it was definitely something in the 10.5.3 update that hosed my video (or just a really, really strange coincidence and/or bad timing).
It's not just an OS driver, either. This is lower level than that, because I get NO video from a complete startup. There's no grey screen with the apple logo-- it stays completely blank. This almost surely means that the low-level firmware got corrupted or flashed incorrectly. The fact that the OS detects it as something completely different (Intel GMA X3100) supports this idea.
Thinking back, I did do the update with my laptop screen closed and using a 20" Apple Cinema Display, which is how I use the laptop 90% of the time. And in each of the previous updates, I'm certain they were installed similarly. I mention this, because someone else mentioned having the same issue as me, and noted that the update was done with an external display. Perhaps the firmware update is bugged so that if it doesn't detect the native display, it gets hosed...
I saw some other suggestions in another thread that sounded interesting. For instance, you can create a self booting CD on another Mac that reflashes the EFI (low level bios) to a factory setting. This could potentially fix it, and I would be willing to try it, if I still had my laptop.
In the future, just because things like this make me paranoid, I'll probably reboot the mbp and use only the native display before I do any updates...
Rich

Repair permissions - always the same ones need repairing (Shockwave)

Each time I do a Repair Permissions after doing an installation (in this case Security 008 update for Intel on my MBP) the same permissions always are repaired and ONLY these. Here's the report I always get:
Permissions differ on ./Library/Application Support/Macromedia/Shockwave 10/Shockwave 10 Preferences, should be -rwxrwxr-x , they are -rw-rw-r--
Owner and group corrected on ./Library/Application Support/Macromedia/Shockwave 10/Shockwave 10 Preferences
Permissions corrected on ./Library/Application Support/Macromedia/Shockwave 10/Shockwave 10 Preferences
Does this seem logical? correct?
I know they are repaired since when I go to do the next installation and begin by Repairing Permissions, nothing needs repairing. Yet I know that after another installation the Shockwave permission differences will rear their heads again.
I do know tht Shockwave is an Adobe thing and I believe it is needed for Quicktime. Could there be something wrong with my Shockwave - or is this typical of Adobe products?
Thanks,
Mrs H

Mrs H wrote:
Each time I do a Repair Permissions after doing an installation (in this case Security 008 update for Intel on my MBP) the same permissions always are repaired and ONLY these. Here's the report I always get:
Permissions differ on ./Library/Application Support/Macromedia/Shockwave 10/Shockwave 10 Preferences, should be -rwxrwxr-x , they are -rw-rw-r--
Owner and group corrected on ./Library/Application Support/Macromedia/Shockwave 10/Shockwave 10 Preferences
Permissions corrected on ./Library/Application Support/Macromedia/Shockwave 10/Shockwave 10 Preferences
Does this seem logical? correct?
I know they are repaired since when I go to do the next installation and begin by Repairing Permissions, nothing needs repairing. Yet I know that after another installation the Shockwave permission differences will rear their heads again.
I do know tht Shockwave is an Adobe thing and I believe it is needed for Quicktime. Could there be something wrong with my Shockwave - or is this typical of Adobe products?
Thanks,
Mrs H
So, I have now updated the Security Update 008 on the G4 and guess what, the same Shockwave Repair permission issue. It DID NOT appear when I repaired permissions before and after the other updates (Java, QuickTime, Migration DVDCD..., etc) But Shockwave repairs did appear after Security 008.
I found this link to another thread here on Security 008 and Shockwave. http://discussions.apple.com/thread.jspa?messageID=8699716&#8699716
...but, I don't know if this is my problem.
In any case, I just have to update iTunes (only on G4) and Safari (on all my Macs) and then I'm good to go - or at least good to go and figure out what is wrong with Shockwave!
Oh one more update to do - a casual remark I made in reply to another poster has led me to learn that I can update my Appleworks 6 and get it to work in X. Hurrah!
Mrs H

Repairing permissions after 10.5.8 update extreme oops maybe???

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