Mr Malkinson is now calling for a “root and branch” reform of the CCRC.
“It’s the entire culture of ‘it’s not our fault we’re blameless and we’re doing the best possible job’,” he said.
“This narrative is completely untrue and it has to be reformed because it’s the static culture there that’s the biggest problem.”
He said he was also waiting for compensation from the government for his wrongful conviction.
“I’m still waiting, I don’t understand why. From this vantage point it looks like I’m just waiting for a signature which seems a little silly,” he said.
“This is not a complicated case so why don’t they just send me an interim payment so I can pay my bills and travel and not be dependent on the department of work and pensions.”
A second, judge-led, inquiry into wider alleged failings into all agencies, including Greater Manchester Police which first accused Mr Malkinson of the crime, is continuing.
Despite the criticisms of Ms Pitcher, ministers had no power to sack her directly because the CCRC is an independent criminal justice body.
The chair is appointed by the King to ensure the agency’s separation from ministers, prosecutors and judges.
The Ministry of Justice (MOJ) said on Tuesday that it welcomed her resignation.
“Given the importance of the CCRC’s work, we will appoint an interim chair as quickly as possible who will be tasked with conducting a full and thorough review of how the organisation operates,” it added.
An MOJ spokesperson added that Mr Malkinson had “suffered a terrible miscarriage of justice and we fully acknowledge that nothing can right that wrong”.
“He has applied for compensation and the process to consider his case is under way.”
They said it would “inappropriate” to comment further.
The CCRC has been contacted for comment.
