Aperture Library permissions changed, deleted package contents

I was helping a friend move his Aperture setup from an iMac (10.4) to a Macbook Pro (10.5). He has set up a referenced system on external drives, and the Aperture Library is also kept on the same external drives. On the iMac, we set up permissions to only allow his account to access the Library and referenced masters, allowing read-only access to other users.
After connecting the external drives to the MBP (10.5, remember), I changed each drive to respect the permissions on each. Then I changed the permissions to be read and write for the current user. Aperture would not open the file, complaining about permissions access (I may have also changed the ownership as well, trying to get it to open).
Then the Aperture Library icon was grayed out; trying to "show package contents" became inaccessible, saying it was busy "moving or copying files." When it finished, the Library file went from 22.9 GB to 0 Kb. All the package contents had disappeared. Aperture still will not open the Library file because the permissions are "incorrect."
This was disastrous, to say the least (but we had a backup, though it was about a week old). The only "odd" thing that stands out was the username/owner was the same on each system (10.4 and 10.5).
Any idea why changing the permissions would cause the Library's contents to disappear? Any idea if I can recover the contents?

Well, yes, changing the external drive to "Ignore Permissions" would solve the problem in the short term. But it would be better to control access to the Library file on the new computer.
Would checking "Ignore Permissions" restore the Library package contents?

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