geomorph - try different stitching software. Hugin is the best I've found and it's free. Microsoft ICE also works really well. Looks to me like your stitching software is shitty at blending the exposure & WB values which Hugin & ICE are very good at.
I love Hugin but it stopped working on my computer. Gives a weird error during the alignment process and won't go any further. The limited tech support for it didn't turn up any solutions so I moved to ICE which works good but isn't as powerful and feature-rich.
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The problems we face will not be solved by the minds that created them.
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