The RYR, RYB, GYR, GYB "color decoders" appear to have a global effect on all inputs and signals. That fits with what was said here
about them being part of the final CRT driver circuit. There are ways to adjust Color (Saturation)
independently for each input though, using the SUB.... items in the service menu, which is probably the more critical thing. Post #19
has more on this FWIW, and outlines a strategy I impovised to "correct" the color for two different video inputs: component and DVI. Some of the ideas on this were extrapolated from the GWII FAQ,
BTW. The actual values for the GWII aren't necessarily applicable to other Sony TVs though. I'd imagine a similar approach could be used with AVIA or VE as well, BTW.
Since the color decoders don't seem to be independently adjustable for each input, getting every video source precisely dead-on may not be 100% achievable. However, after determining the correct Color Saturation/Sub-Color needed for each input, you can flip back and forth between inputs until you find the best compromise for the RYR, RYB, GYR, GYB items. Or you could simply choose to favor the input were color accuracy is most critical. The DVI input allowed more discrete adjustment on my TV, so I tended to favor it over the analog inputs. Color accuracy is more important to my computer applications than DVDs anyway. Both were very much in the ballpark though, and I doubt anyone could detect the subtle differences between them.
Also, as noted in Post #19, I went back to using the basic Brightness
adjustment rather than the BLK item in the service menu to compensate for differences in black levels between the two video sources. I'm not sure BLK was working as effectively as I wanted.
In addition, after "fixing" the color decoders on my TV, the Neutral and Warm Color Temps generally seemed too yellow/orangish to my eyes, so I've been using the Cool setting for many things, until some more adjustment can be done to the greys.