It can be very difficult to read through the politically correct unemotional language of the ATSB report and try to understand what indications the crew saw that may have led them to be suspicious prior to departure that all was not as it should be.
What is telling though on page 23
"It is likely that a message associated with failure of the GPS integrity check did appear on the engine warning display but the crew did not recall seeing one."
(They're talking about an ECAM caution here prior to takeoff, possibly more than one.)
Then the FO went trundling down the runway scrolling though the range selector on the ND while taking off.
A critical mind can infer the level of non normal awareness that the crew might have had.
The ATSB report, to my knowledge, does not go in to any detail about the relationship between the crew and and the associated command gradient that may have contributed to the incident. That seems like a wasted opportunity not only for them but for the rest of us too.