I would bet that even physicians aren't 100% consistent in their diagnosis of autism. If that's the case, then it should be more or less impossible for any other diagnostic approach to be 100% consistent with the physician diagnoses.
Edit: After reading the study closer, this criticism might be a bit harsh. In their autism subjects, they excluded those with mild/moderate autism. Limiting to severe cases should mean there's a higher degree of confidence/consistency in the diagnoses.