Im getting this issue when trying to use /savearea. I do have WorldEdit, and it is enabled. I've tried using both stable and github versions of craftbooks and worldedit.

Please provide more information, paste an error?

The only error is "WorldEdit..jar does not exist in plugins/." in the chat window. Nothing in console.

Your manifest file is wrong.
Open the CraftBook.jar file with WinRar (or similar) and go into "META-INF", and open file "MANIFEST.MF". Make sure the line "Class-Path: WorldEdit.jar" is in there. If not, add it, and save it.

Did the manifest already contain the line, or did you have to add it?
Basically, that error means that when CraftBook.jar is run, the classpath does not specify WorldEdit.jar as a path. Normally, this is done via the manifest.

I added it, I actually just copied the manifest from the release version.

It is now
Manifest-Version: 1.0
Ant-Version: Apache Ant 1.8.1
Created-By: 1.6.0_21-b07 (Sun Microsystems Inc.)
X-COMMENT: Main-Class will be added automatically by build
CraftBook-Version: 1.4
Class-Path: WorldEdit.jar

Ok. So, is it just your compiled version that doesn't work, or the release version as well?

That did not seem to help.

The ant buildfile was broken. This issue should be fixed in future releases.