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If I want to get the best stereo effect from a pair of images I select "Autoalignment" in the Adjust menu. Because it works mostly on the differences of angles of the light from the subject, as recorded in the images, it may not give the most pleasing result.
Below are the original pair of images, followed by the crosseye stereo pair which the software thinks is best.
Then there are to two images, each cropped to get the software to provide the effect I want.
Harold