XSExtra now has a new command when right clicking on a project folder - "Synchronize with File System".
Not heavily tested, so use at your own risk but seems to be working well for me. I find it useful when adding a bunch of resources to an android project (particularly drawable images). Save resources from graphics editor to correct Drawable folder, right click Synchronize and build...
I'd like to update it to list out which files were added/removed, hence this post
From the readme:
Right click on a project folder and choose "Synchronize with File System" to update the project to match files found in the file system. New files will be added, missing files will be removed, linked files will be left alone.
Get it here. Enjoy.