Well, this is extremely interesting. Are you absolutely sure that you didn't trash the files, by accident even? Another question.... are you using the Carbon editor for Coldstone? It has some major issues, but I haven't heard of this one yet.... and I can't comment on what could have happened with Apple Events, since I haven't really delved into Applescript for OSX yet.
Another thing that has occurred to me.... are you logged in as a user, admin or root? Do you mess around with Terminal and file permissions? Because it's possible (though not likely) that you've somehow rearranged the file permissions for all of your files so that they are no longer visible in your profile. Log in as the root user and check if they appear, and if they do, reset the permissions allowing anyone read/write access.
Of course, if this doesn't work..... I hope you were sensible and backed up your work during construction of your project. I'm afraid I can't think of anything else that could have happened (except the dubious possibility you left your profile active, and someone else accessed it and fiddled with your files.) I'm sorry I can't do anymore ProfessorX.... but look on the bright side, at least your game got finished. Just pray it doesn't have any bugs or issues.
Sorry I couldn't be of further assistance.
-Andiyar
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"Any good that I may do here, let me do now, for I may not pass this way again"