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I can also confirm that, after upgrading from base-files 4.0.1ubuntu5.8.04.2 from hardy-updates to base-files 4.0.1ubuntu5.8.04.3 in hardy-proposed, the number of files with guid 999 is significantly reduced but not eliminated; the ones remaining were the floppy ones listed by Andreas and the symlinks /vmlinuz.old and /initrd.img.old.