Final Film output differs from the film in timeline!!!! :

This is frustrating. I am working on a film and when I want to export it when it is finished the final output does not match some parts of the project in the timeline. I look at the film within Final Cut Pro and everything look good. But on some part (the end of the film) when I look at the exported Quicktime movie in the Quictime applicationm the saturation and lightness has changed! The end of the film (just about 4 frames before I start to play around with a few flying cows ( yes it is true) the picture becomes pale and unsaturated for the rest of the film?
I did try the color corrector 3 way on some of the clips.... not all. But that should not have anything to do with it?
Message was edited by: Simen Myrberget

When I have tried to export or save final art (finished films) with File -> Export -> Quicktime Movie the results have been far from reliable. Things has been looking good in the timeline when after exporting the film changed a lot at some parts. This was especially often when I did include graphics which were cut out using alpha channels. The end product looked like it was bleached on those parts involving moving graphics with alpha channels.
But after I tried Compressor things changed. This seems to be much more consistent. The best quality for this specific project was with Output for DVD (Best Quality), but then there were no sound...... and this is the ".m2v" format which I am not familiar with.
http://fotofikling.com/ftp/temp/exportqualitydiffersfcp.jpg
I did also try the 10 bit uncompressed, that was ok too, but slightly paler and less saturated than what I worked out in the timeline (what I wanted for end result).
This was an old film I shot 10 years ago on SD format. I am quiet new to FCP, but I surely hope that one could work in a way that enables to get more reliable results.
Any suggestions how to get a better end result in compressor? Something more like the ".m2v" version..... (see the attached link)...

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