To: StPatty33
Hello,
Actually, the blu-ray movie you are trying to convert has a little different structure and does not contain the whole movie in index.bdmv or largest m2ts file. To convert such movie you should load all m2ts files. If there are credits or some extras along with the movie, you can playback loaded m2ts files in Edit option of AVS Video Converter and see which episodes are unnecessary.
Multi-channel sound is available for Apple TV, see the details
here.
Best regards.