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Paul, no problems about asking questions... lets see if we can figure it out...
I also see the 3 colours coming out of alignment - when I do the final recombine to make a colour image I have to shift G and B to line up with R. I think it is a combination of atmospheric effects (selective refraction at different wavelengths) and a non-perfect barlow and optics.
Green is the worst, I normally have to shift it like 5 pixels. Some of this shift may also be introduced by my colour wheel...
Something you might try is to split your colour images apart into separate RGB sets and process them seperately, then recombine at the end. Unfortunately you'll still have the lower resolution issue of the colour camera but maybe you can get the colour planes lined up.
You can use virtualdub to save your images as BMP's, and then something like pbmtools or imagemagick to split each frame into its components.
Not sure what time you're imaging, but I'd suggest on Jupiter to try between 4 and 5.30am, that's when I get the best seeing so maybe it'll be the same for you, and also Jupiter is highest.
Next time you're in Canberra, bring your scope along...
Bird
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