The clashes erupted in the port cities of Damietta and Alexandria as well as Cairo on Friday, after Egypt’s army chief General Abdel-Fatal al-Sisi called for a show of support for the military.
He urged Egyptians to give the military a mandate to confront Morsi supporters.
Egypt's Muslim Brotherhood has also called for a peaceful stand against the recent military coup that toppled president, Morsi. In a statement on Thursday, the movement’s leader, Mohamed Badie, asked Egyptians to spill into the streets and demand freedom and legitimacy.
Meanwhile, an Egyptian court ordered the detention of Morsi for a renewable 15 days on suspicion of killing policemen and staging prison breaks, the official MENA news agency reported.
The Muslim Brotherhood reacted angrily to the court order, saying it smacked of tactics used by the regime of Hosni Mubarak, Egypt's long-time dictator toppled in a popular uprising in 2011.
Mubarak's regime is "signaling 'we're back in full force," Gehad El-Haddad, a Brotherhood spokesman said.
Morsi, Egypt’s first freely-elected president was toppled by a military coup early this month. He has since been held in an undisclosed location.
Dozens of people have been killed in an unrelenting wave of violent clashes among Morsi supporters, his opponents, and security forces.