I have one profile added for AIS, (name:slideshow 520x250 Crop:YES) and it works great except if you want to edit the image through the media pop-up interface. The image that is loaded to edit is the image profile "slideshow" that I created w/ AIS, and none of the edit controls work.
To get things working again I have to disable the plugin and delete all of the database entries with that custom size. Or, delete the image and re-upload.
I'm looking through the code to find out why it's breaking this functionality and will post back if I can figure out why and hopefully a fix.