ABSTRACT The creation of the Single European Market has been accompanied by an intense discussion on whether market-creating measures have been privileged over market- correcting ones by the institutional system of the EU. The creation of an ‘Area of Freedom, Security and Justice' (AFSJ) launched by the Treaty of Amsterdam poses a similar question which, however, has remained heavily under-researched: will the balance between policing competencies and individual rights shift towards the former at the expense of the latter? Recent work on the ‘new raison d'e ́tat' and the strengthening of national executives in processes of Europeanisation points in this direction. This essay explores the parallels between the Common Market and the AFSJ with regard to the relationship between the structures and substance of governance. The balance between security and individual rights is scrutinised in the main pillars of the AFSJ: asylum cooperation, judicial cooperation in criminal matters and police cooperation.