According to the New York Daily News,
Vida Nueva (New Life) internet publication said the pope told Spain's new ambassador to the Vatican, Gerardo Bugallo, that the Holy See is against all self-determination moves that are outside decolonization processes.
(I have to say that although this is circulating in the news I don't know if there is an official statement from the Vatican).
In Spain though, some 400 priests openly support Catalonian independence.
I'm confused as to what business the Catholic Church would have in supporting or opposing an independence movement, unless it is related to its doctrine or the Bible.