H264.mov , Flash 9 - QT pro works, Compressor Doesn't???

Creating h.264 movies with QT Pro. Change extension, to .flv, they play fine in Flash 9 player. Use Compressor to make similar movie, change extension to .flv, it doesn't work.
I need to batch hundreds of movies as we update our websites, so repeatable, preset driven work flow is a must. Any idea why QT Pro works and Compressor doesn't?
Thank in advance for your time.
Frank

You need a mpeg4 compresson that's is set for h.264. The mpeg4 in Compressor doesn't have the setting. Here read this: http://discussions.apple.com/message.jspa?messageID=8779452#8779452

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