Aperture using 3 week old file paths for referenced files after Rebuild

I recently had major problems with some Nikon D60 files (the referenced files switched original files). I had to re-import everything a start again. Having sorted everything out, I then relocated the files with new files names (thinking that the original file names may have caused the problems).
This was 3 weeks ago. However, when I Rebuilt the library today, these renamed images went offline because Aperture has kept the original file paths (with the original names).
Does anyone know how to update file paths to the current ones? (rather than some random previous one).

Thanks for the reply. I will check out the links.
I should have mentioned that all renaming/moving of files was done from within Aperture. Aperture is not updating its own file paths.
The process is this. Having moved/renamed the images (using Aperture's Relocate Masters) I am able to use the software, close it down, restart etc and the images will be found correctly with few/no 'lost' images. It is when I use 'Rebuild' that the file paths revert to an old, previously used version that is no longer valid. It is as though there are two preference files, each with a different file path information. There was a post sometime ago that mentioned using Terminal commands to force Aperture to update to the correct files paths/directories. I haven't been able to find the post yet though.
These particular files (Nikon D60) are not from my own camera so I am not sure why I have had such an issue. Normally I am using a Canon 5D MK2 or a Phaseone digital back. However, even with my own equipment I do regularly have to 'Reconnect' one or two image files that have become lost which is annoying. So I am keen to get to the bottom of this issue.

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