No matter how hard the CodeCollaborator plug-in tries, it will always play catch-up with all the source control plug-ins available in terms of diffing. Take for instance Egit: CodeCollaborator did not even start the race yet! http://feedback.codecollab.com/forums/4652-code-collaborator-features/suggestions/259657-integrate-the-eclipse-plugin-with-egit

Unlike its plug-in sibling, command-line "ccollab" understood very well that it cannot win this diff race every time on every track. That is it provides the command "ccollab adddiffs". Please provide the same "adddiffs" feature in the plug-in.

Note the web interface has the same limitation:
http://feedback.codecollab.com/forums/4652-code-collaborator-features/suggestions/96280-upload-diffs-directly-via-the-web-client