The commission published an inquiry report into allegations of poor management and misappropriation of funds at the Croydon African Caribbean Family Organisation last week. The report says the regulator received two complaints against the charity, one from the council and another from an anonymous source.
However, after the commission found there had not been any criminal activity by the trustees, the council denied making any complaint against the charity.
A commission spokesman said all parties had been given a chance to make corrections before the report was published. A council spokeswoman said: "We shall be writing to the commission to see if they will change it."