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Eternal has TWO audio tracks. The regular and the commentary one. If you're using a program that plays both tracks at the same time, then maybe it's time to download a new video player. My favorite player is GOM player, but there's certainly other options. A new encode that removes the commentary track will not be released, since this is an issue on your end.
I will encode a new Gokaiger 5 HD that will trim the audio. I personally don't think anyone will notice any differences, but doing a new encode will fix any issues that people may have with it.