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Then what I suggest, is following that article in part, but also creating new CSS styles for simple color changes, or what have you, depending on what module is loaded. I think I may have seen other how-to's on how to achieve this, but I can't for the life of me remember where I saw them.
There ae a great amount of theme editors here that may be able to help you out or at the very least, be able to point you into the right direction.
Sorry I couldn't be of more help.
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