Along with the Align option, the ability to load a camera calibration to use for all chunks in batch list, and a tick box so the alpha channel is used to do masking hands free.
Written a nice little mask batch processor for Linux here. (could use photoshop back in windoze/sMac but want to stay within Linux. Its Just a shame there is no macro/actions function for the likes of gimp). My tool takes the photos, locks to a region & color you assign with a threshold limit, creates a binary mask, which can also be set to be feathered, then converts to Tiff with alpha and copies over the Exif data from its original to the new Tiff.
Also love to see the batch process give us more feedback as to what chunk its on and overall time for completion.
cheers guys