Sister Gertrude was indicted for war crimes on 25 January 1996 by the Belgian examining magistrate without, however, being arrested. Sister Kisito was interrogated on the same day but was not indicted for having participated in the massacres at the convent for lack of proof at that time.
During 2000, serious charges implicating the two nuns were made following the testimony of Emmanuel Rekeraho, the leader of the militia in Sovu.
The so-called " Butare Four- trial", involving the two nuns and the co-accused Vincent Ntezimana and Alphonse Higaniro, began on 17 April 2001 and lasted eight weeks before the Brussels "Cour d'assises" (trial including a y jury).
On the evening of 8 June 2001, after almost twelve hours of deliberations, the Jury found Sister Kisito guilty on all counts and sentenced her to 12 years imprisonment.
After serving half of her sentence, the Sentencing Tribunal of Mons decided in June 2007 to grant Sister Kisito's request for early release.