Who knows where the fallacies lie in this case? You dismiss the evidence gathered by the PJ, but it exists and can be examined. You can place your faith in investigators whose evidence is unknown if you so desire, but as you have pointed out; professionals can be incompetent.
The evidence used by the Amaral PJ team was neither of use in finding Madeleine or to achieve his prime objective of 'nailing' her parents in line with his oft quoted theory of events.
None at all.
That is not to say that there was no evidence which could have been used to direct investigators to other areas for investigation.
Scotland Yard uncovered phone evidence which seemed to have been ignored and carried out rogatory interviews on burglars as a result.
Similarly their colleagues from the Porto PJ showed an interest in a dead former disgruntled employee of Mark Warner also as a result of checking the phone traffic of the night Madeleine vanished.
The present investigation also has evidence retrieved from a phone dump covering that period that their prime suspect's phone was in use in proximity to the McCann apartment.
So the evidence was there to be investigated at the time. No-one bothered to look for it. They were too tied into checking the McCann phone traffic instead.