"Relinking Failed" when trying to relink to encoded M2V and AIFF in DVDSP4

Question

NOTE: There seems to be a similar topic on this already found at http://discussions.apple.com/thread.jspa?threadID=686483&tstart=15, but that topic has seemed to degrade into a debate on audio encoding instead answering the question.
In DVD Studio Pro 4, I am bringing uncompressed QuickTimes into projects and allowing the program to automatically encode the QuickTimes into their respective M2V and AIFF files (as per the new feature in DVDSP4). I want to delete these uncompressed QuickTimes now since they take up space and are no longer necessary, as the project has the M2V and AIFF files it needs encoded in the contents of the project file (if I right-click on the project file, go to Show Package Contents and navigate to Contents/Resources/MPEG, it shows the M2V and AIFF files along with several PAR files and if I try playing these files, they do actually play in QuickTime just as they should if I encoded them with BitVice). NOTE: the DVDSP4 manual says you are able to do this.
So I delete the uncompressed QuickTimes and open up the project again. As expected, it tells me that the Assets cannot be found and gives me several options: "Replace with Encoded File", "Locate", "Cancel", "Continue". So I try "Replace with Encoded File" because that's exactly what I want to do, and according to the manual it says you are able to do this. It then reports to me where the missing file should be, and where the encoded file it will replace it with is (in the contents of the project folder as noted before). I click OK. Here comes the kicker: when I do this, I get the error message "Relinking Failed: The file you selected does not match the attributes of the missing file." But that's not all. I go on to "Locate" and navigate manually to the project/Contents/Resources/MPEG directory, but alas, the file I want has disappeared! And only that file only that I just tried relinking is gone, the rest are still there!
I tested some more and had the Contents/Resources/MPEG directory open when trying "Replace with Encoded File" and the moment I hit OK to try to replace with the encoded file, the file deletes itself! And then, of course, I get the error message. Now, the manual says I should be able to do exactly what I'm trying to do - get rid of the original QuickTimes and replace them with the encoded files - but this repeatedly happens with different QuickTimes and different DVD projects. And encoding the files outside of DVDSP4 is not a solution, it is simply a poor workaround.
Here are the machine specs not already listed below:
QuickTime Pro version 7.0.1
DVD Studio Pro 4 version 4.0.3
The QuickTimes are kept on a Medea RAID
The DVD Studio Pro 4 projects are kept on a G-RAID
Both RAIDs are formatted Mac OS Extended

Answer 1

Drew13, thank you for the reply.
I do agree with you that encoding outside of DVD SP is better than letting the program do it, and if I was in charge at my place of business that is how I would do it. However I am not in charge.
The problem remains that the manual says that I should be able to do it this way, being able to delete the original, uncompressed QuickTimes and replace them with the encoded files. I have not tried your method of deleting the references the references to the missing asset (I will be sure to try doing so when I get the chance), but again, that is a workaround and not a solution. If the manual says I am able to do it the exact way I'm doing it, then it should work the exact way I'm doing it. But it is not.
Is it possible this is a bug? Do members of the DVDSP4 programming team read this forum and would be able to answer this?
Thank you.