Just to clarify something which seems to be confusing people, the 1006 refers to individuals against whom allegations have been made and not individual cases or the number of allegations.
From the opening address.
"During the investigation of this case study, Watchtower Australia produced some 5,000 documents pursuant to summonses issued by the Royal Commission on 4 and 28 February 2015. Those documents include 1,006 case files relating to allegations of child sexual abuse made against members of the Jehovah’s Witness Church in Australia since 1950 – each file for a different alleged perpetrator of child sexual abuse"
[Bolding mine]
And, as others have said, these are the ones which made it onto a file.