Hello Craig,
Thank you for visiting Microsoft Community and providing us with the detailed description about the issue.
As per the description, I understand that you are experiencing issue with Movie Maker does not recognize .m4a files on the system.
I certainly understand your concern and will try my best to help you.
I really appreciate all your efforts in trying to fix the issue.
Apparently, the file type that you are using is not supported in Windows Live Movie Maker.
I would suggest you to refer to the article given below and check if that helps.
What kind of files can I use in Movie Maker?
http://windows.microsoft.com/en-GB/windows-live/movie-maker-file-types-faq
I hope this information is helpful.
Please do let us know if you need any further assistance, we will be glad to assist you.
Thank you.
Jayant