"I would like to offer my sincere apology for an earlier altercation with some members of the media during the ANC provincial rally in Mount Frere whilst trying to stop the singing comrades," Ndabeni-Abrahams said in a statement posted on her official Twitter account.
"I wish to assure the media and South Africans at large of my unreserved commitment to media freedom. I sincerely regret the incident," she added.
According to the Citizen, a group of people wearing ANC regalia disrupted the party's treasurer, Paul Mashatile, during his speech at the election manifesto launch.
The publication reported that the group sang struggle songs while raising placards about poor service delivery.
Ndabeni-Abrahams was quoted as saying: "Why would you give coverage to people who are out of order?"
The SABC reported that Ndabeni-Abrahams approached its video journalist who was trying to take visuals of the protesters.
The minister allegedly put her hands in front of the camera telling the journalist not to take footage.
Meanwhile, the South African National Editors Forum (Sanef) has condemned Ndabeni-Abrahams' actions.
"SANEF has seen the video footage which was also broadcast on television stations showing the minister preventing the journalists from covering the protest and ordering them to cover what they came for and not give coverage to 'people that are out of order'," it said in a statement.