The inherent problem is that an MVC file isn't meant to be split. That's why most professional 3D cameras record into 2 separate files - so you have a 2D stream if need be.
The major editing platforms out there - Avid, FCP, and Premiere - can't do it. Sony Vegas - far in the minority of professional stereoscopic editing, is a wildcard for me. Perhaps someone else can chime in.
You have not mentioned the type of camera you have exactly. Have you thought about contacting the manufacturer to see if they have a solution? If indeed it IS a Sony camera, then an email or phonecall to the Vegas team may help.
Since it appears you don't want to try Vegas yourself, or try FFMpeg, you could do a baseband record of a 3D output from your camera or NLE, and mute one eye on the output. However, that's a job best suited for a technical editor - probably not a camera op.
~Michael
.: michael kammes mpse
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