Start by looking at the outputted files and the log (not the summary).
The philosophy you need to show what *is not* the problem. Look at the values of the calibrated images. Show they are not the issue. Look at the values of the registered images... show they are not the issue. Show screenshots of the WBPP configuration (use the Diagnostics button)- show that your configuration is not the issue.
By going through this exercise you will find the issue... or if everything is OK, you will eliminated many many things and make it easier to discover the issue.
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