Appearing to retract his criticism of Zuma's reshuffle last Friday, Mantashe said the NWC agreed that: "The public dissonance was a mistake that should not be committed again".
The commission, headed by ANC veteran Andrew Mlangeni, reportedly concluded in December a year ago that Zuma should step down, and had informed party secretary-general Gwede Mantashe and requested an urgent meeting this past weekend.
He said that at the official meeting on Monday "we said everything we wanted to say, candidly and open to each other".
ANC deputy secretary-general Jessie Duarte said the ANC's integrity committee had also met with the officials and the letter doing the rounds claiming that the committee had recommended Zuma's resignation was "withdrawn".
ANC members used the funeral service of ANC struggle stalwart Ahmed Kathrada last Wednesday to voice their dissatisfaction over the president's leadership.
Demonstrators protest against South African President Jacob Zuma's decision to fire Finance Minister Pravin Gordhan, in Cape Town, South Africa [Mike Hutchings/Reuters] The past week in South Africa has been fraught with political tensions and social melodrama that has, at times, resembled farce.
South African opposition party, the Democratic Alliance (DA) has received the backing of firebrand Julius Malema's Economic Freedom Fighters (EFF) party to table a motion of no confidence against Zuma for the reshuffle.
Previous no-confidence motions in parliament against Zuma have failed as the ANC has a commanding majority there. Zuma told the NWC that the reason he removed Gordhan was because his relationship with Gordhan had broken down and was "irretrievable".
Asked if he withdrew his remarks at the NWC meeting, Mantashe said no.
Mkhize said Zuma's attempt to have the ANC top six legitimize changes to the Cabinet which they were not consulted on, meant the ANC was no longer at the centre of power. The ANC formed the commission in 2013 to help protect its image and deal with members of the party alleged to have behaved improperly.
New finance minister Malusi Gigaba told a news briefing the ratings cut, which will push up borrowing costs, would put an even greater focus on growing the economy, and he said he would address the issues raised by S&P. It said it would keep engaging with those allies "on this matter", disappointing critics who had hoped for more forceful language against a president who has been enmeshed in scandals for years. "This was consequently presented as the only reason for his removal which was unfortunate and incorrect", he said.