Many coordination phenomena are based on a synchronisation process, whose global behaviour emerges from the interactions among the individual parts. Often in Nature, such self-organising mechanism allows the system to behave as a whole and thus grounding its very first existence, or expected functioning, on such process. There are however cases where synchronisation acts against the stability of the system; for instance in the case of engineered structures, resonances among sub parts can destabilise the whole system. In this Letter we propose an innovative control method to tackle the synchronisation process based on the use of the Hamiltonian control theory, by adding a small control term to the system we are able to impede the onset of the synchronisation. We present our results on the paradigmatic Kuramoto model but the applicability domain is far more large.