The document needs to be seen within several contexts.
After the Dutch surrender to Germany in May 1940 anti-Jewish measures began. Jews were systematically expelled from the social and economic life of Holland. At the same time Germany began demanding Dutch men "volunteer" for work in the Reich.
The National Socialist Movement in the Netherlands (Nationaal-Socialistische Beweging in Nederland) was the only political movement permitted to exist under the Occupation. NSB members took it upon themselves to enter Jewish neighbourhoods in Amsterdam and incite fights. Local Jewish self-defence groups fought back, often with local non-Jewish supporters. On 11.02.1941 during a street fight instigated by the NSB a Dutch Nazi was mortally injured. On the following day German troops assisted by Dutch police cordoned off the Jewish district in Amsterdam and forbade entry to non-Jews.
A week later on 19.02.1941 a botched raid by German police on an ice cream parlour owned by German Jews resulted in a riot and several Germans were injured.
In retaliation the Germans sent in the SS on 22-23.02.1941 who conducted a full-scale pogrom in the Jewish district. Over 400 men and boys were seized and transported to KL Buchenwald or KL Mauthausen. Only two are known to have survived the war.
Outrage at the pogrom and fearing that actions against and deportation of Dutch Jews would also lead to action against and deportation of non-Jewish Dutch men galvanised various Catholic, Protestant, Social Democratic groups and the underground Dutch Communist Party into agitating for a General Strike on 25.02.1941.
Although the strike was unsuccessful and the Germans quickly suppressed it, it was the biggest act of civil resistance to German forced labour and deportation policies. More significantly, it was the biggest demonstration of public anger at German anti-Jewish policies and actions. German occupation authorities adopted less confrontational strategies thereafter. Deportation of Dutch Jews did not begin in earnest until January 1942.
From Orsenigo's letter to Cardinal Maglione it seems that the pogrom against Amsterdam's Jews was an unplanned event in contrast to the actions taken against several Catholic institutions. Archbishop De Jong had condemned the BSB in 1936 and went even further with excommunication of all members of the organisation after the German invasion in May 1940. The Catholic Church had placed itself publicly and unambiguously against the occupation and made several public protests, such as the one mentioned here, always with dire outcomes. The occupiers were not slow in moving against it. Catholic media was shut down, institutes of higher learning were watched carefully and dozens of outspoken priests and theologians were arrested. Many of them were sent to KL Dachau where they died.
The story of Henricus Hoeben, a Catholic journalist and man of integrity, stands out. His story should be more widely known. There is a link in the notes for more information.
It could well be that the two events were in an unintended parallel chain of events.