Mxolisi Nxasana was allegedly asked to step down after being denied security clearance.
Thuli Madonsela called on Jacob Zuma to account to Parliament within two weeks.
The Justice Minister tackles the expulsion of three Rwandan diplomats and a Burundian envoy.
In a tit-for-tat move, Rwanda expelled six South African diplomats.
Mvumeleni Jezile was sentenced to 22 years in prison for rape, human trafficking and assault.
The Justice, Crime Prevention and Security Cluster promised to find Karageya’s killers.