The group claiming to be from Hindu Sena chanted slogans against the newspaper outside its office in the ITO area of Central Delhi, alleging that the daily has been carrying "anti-national" news items relating to the boat issue.
The activists also burnt copies of January 1 edition of the newspaper that carried reports about the incident.
"The reportage of January 3 edition of The Indian Express says that the occupants of the Pakistani vessel, intercepted by the Indian Coast Guard on new year's eve, were not terrorists. This is like speaking the language of Pakistan," said Hindu Sena President Vishnu Gupta.