The Photoshop scripting guru Paul R over at RetouchPro has created a really cool script to batch rename and number selected Photoshop layers. I haven't found anything similar on the Illustrator side.
He's given permission for me to post it here in my hopes that some Illustrator scripting genius could come up with a similar script for Illustrator. Would it be terribly difficult to convert this into something Illustrator could use?
http://www.mediafire.com/file/g7usr73u0236p0a/Rename_&_Renumber_Selected_Layers.jsx
http://www.mediafire.com/file/dbah74x13bsa74c/Rename_&_Renumber_Selected_Layers.jsx.zip