The decision, while not entirely unexpected, could nonetheless bring an end to Francis’ honeymoon with the many American Catholics who had viewed the crackdown on nuns as heavy-handed and unnecessary.

Archbishop Gerhard Ludwig Mueller, who heads the Vatican’s Congregation for the Doctrine of the Faith, met on Monday (April 15) with the LCWR’s leadership for the first time since Francis’ election on March 13.

According to a Vatican statement, during a recent discussion of the case with Mueller, Francis “reaffirmed the findings” of the Vatican investigation and the “program of reform” for LCWR that was announced on April 18, 2012.

In what was seen as one of the defining acts of Pope Benedict XVI’s papacy, the Vatican’s doctrinal office issued a “doctrinal assessment” that criticized the LCWR for not speaking out strongly enough against gay marriage, abortion and women’s ordination.