On the night of 25–26 June, a pogrom led by Klimaitis unit was instigated by Nazi Security Police (Sipo) and SD (Sicherheitsdienst or Security Service, the intelligence arm of the Nazi Party), under SSBrigadeführerFranz Walter Stahlecker. By 28 June 1941, according to Stahlecker, the commander of the German Einsatzgruppe A, 3,800 people had been killed in Kaunas and a further 1,200 in surrounding towns in the region. Klimaitis' men destroyed several synagogues and about sixty Jewish houses. Some sources claim that the number of victims in Stahlecker's report were probably exaggerated.
After the war, Algirdas Klimaitis, moved to Hamburg, Germany, where he died in 1988.