The staff, Clive Eksteen and Altaaf Kazi, reportedly denied the photos were endorsing the use of the masks to troll Warner.
Williams, of course, is a Rugby player from New Zealand and the same man with whom Warner's wife Candice had an infamous toilet tryst in a Sydney bar 11 years ago, much before she met the Aussie vice-captain.
In a statement released on Saturday morning, CSA said: "While CSA respects the rights of its fans to represent their own points of view, CSA does not associate itself with these actions and urges all Protea supporters from refraining from being involved in distasteful or unwelcome actions that may impact the image of the sport and its supporters".
An apologetic Cricket South Africa (CSA) is in damage control over a photograph showing two of its officials posing with fans wearing Sonny Bill Williams masks in Port Elizabeth.
This comes fresh from the controversy of the previous Test match, in which a fight broke out after a remark about Warner's wife by Quinton de Kock. According to him, the mask-wearing fans were not allowed inside the stadium initially, but somehow managed to contact him and Eksteen. CSA president Chris Nenzani apologized to the Australian cricket board, the team management, players and their families for the incident.
The Australian team has been made aware of the photo and are outraged by it, as well as CSA's call to overturn a decision by venue security to have the masks confiscated in bags at the turnstiles on entry. The left-handed opener was left fuming after De Kock had allegedly said something about Candice during the first Test, and the home fans wanted to further ridicule the Australian.
On Saturday, South Africa fast bowler Kagiso Rabada was charged for another breach of the disciplinary code for intentionally bumping into Australia captain Steve Smith on the field during day one on Friday.