The permission was granted after successful talks between the marriage halls' owners and Commissioner Karachi Iftikhar Shallwani.
The NCOC issued a handout to provincial chief secretaries and health secretaries renewing guidelines for the marriage halls.
The deputy commissioner has ordered to shut all markets, marriage halls and shopping malls by 10 pm.
The protesting owners said that their marriage halls are built on the legally acquired land, but the administration is allegedly threatening them with demolition.
The officials inspected seven marriage halls in Karachi and sealed two halls over violation of the standard operating procedures (SOPs), enforced by the government to contain spread of the COVID-19 pandemic.
The district administrations imposed heavy fines and sealed marriage halls, restaurants and schools violating the COVID-19 SOPs.
According to the National Command and Operation Centre (NCOC), six marriage halls and 103 restaurants were sealed in the port city over avoiding coronavirus SOPs.
The Sindh and Khyber Pakhtunkhwa governments have allowed the opening of marriage halls under the strict implementation of standard operating procedures (SOPs).
Marriage halls association and the provincial government held successful talks on Tuesday.