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Hi Graham,
The only thing I can think of, is possibly a Wipe anomaly (did you use it?), caused by dead (sub) pixels in your data. See if you can spot a dead pixel in one of the channels at the center of the green patches. Dead pixels should usually all be eliminated after stacking and calibrating dithered data, but they may indeed remain in individual subs.
If all this is indeed the case, upping the 'Noise Filter' parameter in the Wipe module should fix things.
EDIT: Yep, I can see dead pixels at the center of the pages (check the stars at the center of both patches). The dead pixels will cause Wipe to basically throw its hands up in the air for that particular area of the image, as a dead pixel doesn't fit with what it knows about the background level - it's way too black!.
Cheers,
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