He says there is a "cosiness" between the council and the medical profession. To foster independence, he wants the council's membership changed from its current 8/4 doctor majority to equal numbers of doctors and lay people, and an end to the profession being allowed to elect half of the doctors.
He wants competence checks to be strengthened by adopting aspects of North American and British systems, possibly including patient feedback, screening of at-risk doctors, and occasional performance assessment of all doctors.
He even suggests five-yearly clinical exams, although he acknowledges it may be a long time before this is considered acceptable.
Medical groups have reacted coolly to Professor Paterson's prescription and rejected the claim of an unhealthy closeness between the council and the profession.
Medical Association chairman Dr Paul Ockelford said the doctors on the council provided high levels of professional insight.
And the council's chairman, Dr John Adams, said its systems for requiring doctors to demonstrate ongoing competence as the basis of renewing their annual practising certificates struck the right balance between external regulation and the culture of medical professionalism.