The Auckland Plan, a 30-year blueprint, had provided a coherent strategic regional direction and recognition of the city's national significance.
"However, the council is still a work in progress and significant challenges remain," Ms Provost said.
She singled out tensions between the governing body of the mayor and 20 councillors and the 21 local boards.
The 76-page report also said the council-controlled organisation (CCO) structure was a good model but tensions between the council and the seven CCOs were "clearly growing".
Plans for a "full review" of CCOs after next year's election were noted.
Despite concerns from some right-leaning councillors about debt, she said plans to raise council and CCO debt from $4 billion in 2011 to $12.7 billion in 2022 "appears prudent".
Mr Brown said the report reinforced that the transition had been well managed.
Progress report:
• Auditor-General's take on the Super City
• The scale of change was huge and unprecedented in the public sector.
• A lot is going well but the council is a work in progress.
• Tension between the governing body and local boards.
• The council-controlled organisation structure is a good model, but tension is growing with council.
• Councillors and local board members have a "wall" of reading material.