Federalists (like me) who want to create United States of Europe usually want to get rid of the current institutions, and replace them with proper executive and legislative entities, elected by European citizens.
But the focus on Commission/Parliament is misguided: they are a just a smoke screen, as neither has much power. In the EU power is held by the European Council and The Council of the European Union [1]. These two institutions are composed, respectively, of the head of states (Merkel, Hollande, Renzi, Cameron, etc.) and the various ministers of each branch of government (economy, education, agriculture, etc.). The former controls the commission, and the latter holds most of the legislative power.
[1] Not sure I got the English name rights, as they are pretty confusing.
But the focus on Commission/Parliament is misguided: they are a just a smoke screen, as neither has much power. In the EU power is held by the European Council and The Council of the European Union [1]. These two institutions are composed, respectively, of the head of states (Merkel, Hollande, Renzi, Cameron, etc.) and the various ministers of each branch of government (economy, education, agriculture, etc.). The former controls the commission, and the latter holds most of the legislative power.
[1] Not sure I got the English name rights, as they are pretty confusing.