CS 6 install effecting Expressions Encoder

Hi,
Sorry this might be a little off topic for this forum, but I'm on a Windows 7 SP1 PC and have just installed CS6. I use Microsoft Expressions Encoder to make all my .wmv files and it's always worked fine, but after the CS 6 install when I try to load a Quicktime(uncompressed, h.264, dnxhd, etc.) into Expression Encoder the file has a green tint to it like it's missing the red/blue channels of the file(see attached image. Also if I try to use Adobe Media encoder with a quicktime to create a .wmv I don't have any encode settings available to. Is there some issue with the Windows Me)dia codec and Adobe CS 6 right now? I can't find any threads on it, but is a huge issue for me as many clients require me to make .wmv. Any clues to what conflict might be going on here? I'm running Windows Media Player 12 and Expressions 4.0.4 free version.
Thanks,
Ryan

Thanks for the response Dima. So after digging a little deeper I've found there is a settings tab in Expressions Encoder (Tools>options>Compatibility) that shows all the codec plugin on your system. You can enable/disenable as you please. I have a list of "quicktime.qts" files. When I disable all the "YUV settings" and leave the RGB options enabled EE sees the files just fine and encodes properly, but this has lead me to a new problem.
My source files are DNxHD 220 .MOV set to RGB space exported from a timeline in Avid DS which is working in YUV space. Quicktime plays these files back fine, I open them in PP 6 and they playback and look fine, but when I got to export a .wmv the exported file appears with the green tint I've explained. So it seems to be a RGB>YUV conversion issued, but I'm not sure which software is causing it. I can send you a sample .wmv export from PP 6 and a sample of my source material as well if that would help.
Thanks for the help!
Ryan

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