The Vatican generally has been helpful with people trying to relocate. I imagine they relocated far more Jews than Germans, and in relocating Germans, most were not Nazis, and the Nazis probably were not generally identifying as Nazis.
No, the Vatican was aware they were Nazis. The Vatican worked with the Argentinian government to secure their safe passage. Argentina has a problem with antisemitism. Alberto Nissman’s assassination and George Soro’s land purchases tell me the problem still exists.