OK, that makes more sense now.
Start the batch and watch it run. Do those images open already cropped, before they are extracted in the batch?
I bet there is crop data saved from Lightroom in an XMP file. Then when it opens in Photoshop, it automatically applies the crop. That has to be what it is. There is no way that EZ green Screen is cropping the images itself.
I will bet my house that it is applying crop data from the Lightroom settings.