There was to be a referendum to decide the possible independence of this area, and the time is getting closer. The U.N. does promote humanitarian aid in Sudan, but it’s hard to find any specific information about conditions in the south, other than the fact that the U.N. is training the local police ahead of the January 9 referendum.
One group active in the area is the Catholic Church–the Catholic Relief Services page gives an overview of the situation with a clarity lacking on the U.N. pages. (The UMCOR page is disappointing–it clearly hasn’t been updated recently as it only talks about Darfur.) The Catholics say they can do “peacebuilding“.