The Prague Process participating states agreed that the implementation of the Action Plan requires an effective support and coordination mechanism, and therefore the current Prague Process management structure encompasses the Senior Officials’ meetings, the Core Group, the Ministerial conferenced, and the network of National Contact Points.

The National Contact Points’ network facilitate daily cooperation at expert level, and agrees on expert meetings if required for implementation of the activities envisaged in the Action Plan.

Senior Officials' Meetings are organised at least once a year to prepare the ground for Ministerial Conferences, monitor the implementation of on-going actions and evaluate the impact of completed actions, and to prepare decisions or recommendations for decisions on future policy directions.

The Core Group consisting of core partner states and the European Commission was established on 20 November 2012 in order to assist in coordinating activities and in preparing for the Senior Officials' Meetings. The composition of the Core Group takes geographical balance into account.

Ministerial Conferences are organised to evaluate the results achieved and to decide on future policy orientations.

Since December 2010 the Republic of Poland is the leading state of the Prague Process.

International Centre for Migration Policy Development serves as a Prague Process Secretariat and a Support Team to the leading state.

Implementation of the process is also supported by the Steering Committee, consisting at the moment of Poland, Czech Republic, Germany, Hungary, Slovakia, Sweden, Romania, which also lead certain components of the Prague Process Targeted Initiative project.