It is perfectly obvious that the third secret predicted the state of the Church would be as we experience it now. By their fruits you shall know them. But Modernism did not begin with Vatican II. Modernism began in 1835 when the definitions and decrees of the 1616 and 1633 Church were bypassed in order to comply with modern 'science.'
'Christianity came to a crisis point 150 years ago when all the skeletons came out of the cupboard. German Biblical scholars were taking the Bible to bits at just the moment when the [earthmoving] scientists were casting doubt on the very idea of a Creator. Now you can still go on believing that there is a God when you have read Darwin’s Origin of Species but he [and Copernicus, Galileo, Newton, Lyell, Einstein and Fr Lemaître] revealed a process which was, so to speak, self-sufficient – which did not need a god of any kind. Darwin, in fact, made more of an impact on philosophers who had already been reaching godless conclusions about life than he did on biologists.' --- A. N. Wilson, writer and historian, Daily Express, Oct. 21, 1999, ps.44, 45.
The third secret of Fatima came well after at least four popes condemned Modernism and spelled out the consequences of Modernism. No doubt the third secret confirmed what we have experienced since Vatican II.