When i install Backbox, always clone such scripts as
Sublist3r, Th3inspector, Routersploit, jexboss, empire.
Probably not really needed Cr3dOv3r, TuxLogCleaner
And java proxy programs Web Scarab, Burp Suite. Some times i use it instead ZAP.
So maybe some of these tools must be in dist from the box? Most of all Sublist3r (it is not like knockpy as you see), Routersploit, Empire.
And by the way update w3af, it is terribly out of date.