In a statement, Türk said the legislation "could hamper the provision of life-saving assistance by search-and-rescue (SAR) humanitarian organisations in the central Mediterranean, with more deaths at sea a consequence".
The decree was approved by the Lower House on Wednesday and looks set to be examined by the Senate next week.
The Italian government is trying to discourage NGO-run ships, saying their activities encourage small boats carrying asylum seekers to attempt the hazardous crossing from North Africa to Italy.
Under the decree, NGO-run ships must immediately request the authorities assign them a port of safety after making a rescue, rather than staying at sea to help other people.
They risk big fines and the impoundment of the ships if they fail to comply.
The government has also started to allocate ports of safety to NGO ships that are some distance from their position after making the rescues.
ANSA
