And to make the spec clearer, for all audio file types that are not audio/mpeg (.mp3) and audio/mp4 (.m4a) (the core types) you will need to create either an .mp3 or .m4a to act as a core media fallback. So to save space, it is better to simply convert other audio formats to one of these core types.
For video, the latest recommendation for maximum compatibility is to use video/mp4 (.m4v) or .WebM for video files. Again, trying to use .wmv, .flv, .avi audio (or video) files will generally not be a good idea as it will require fallbacks away from windows and flash specific video types.
Also note, that epub3 supports remote linking to resources although I am not sure how many e-readers will support that. If they do, you could host alternate ebook video resources on a website while keeping the core media-types physically inside the epub3.
Hope this helps.
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