So far there is nothing to show that AQ Khan was made a 'scapegoat' by the GoP or PA.
First, this article stands discredited in terms of its accuracy because of the blantantly wrong claims that have been pointed out.
Second, there is hardly any motive for Pakistan as a state to proliferate to Iran and Libya. At the time that Khan alleges he was asked to proliferate by the GoP/PA, Pakistan would have had a very strong strategic relationship with the Saudis, including gaining influence in and stabilizing Afghanistan - there is no way the PA would jeopardize that relationship by proliferating to Iran, and for what? A pipe dream of an "Islamic bloc' at some unknown future date? Its an absurd argument.
The Libyans were in fact pretty mad at Pakistan after ZA Bhutto (a close friend of Gaddafi) was hung, and they essentially cut off ties and expelled all Pakistanis. Now all of a sudden it is being argued that the PA decided to give them nuke technology - for what? Proliferating to Saudi Arabia makes sense since they were pumping in billions into Pakistan and Afghanistan (and likely into the nuke program), but there have been no accusations regarding that.
The allegation of proliferating to North Korea for '3 million dollars' is just ludicrous - 3 million dollars is a measly amount for a state, and the NK's were working on a Plutonium based weapon in contrast to Pakistan's uranium based program.
There are way to many loopholes in the article and the claims of 'AQ Khan was made a scapegoat' in terms of out right factual errors and lack of motive to proliferate (to Libya and Iran at least) for the Pakistani State and its institutions.