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O.P.  what command line audio encoder do you recommend?
 ffmpeg can re-encode audio to various different formats but I haven't been able to find a way to enable vbr (it uses libmp3lame, so it should be possible but I haven't found a way).  
 
what other command line tool do you know of that supports vbr and doesn't suck? 
The previous sentence is false. The following sentence is true.  
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