Dunedin City Council property services group manager David Bainbridge said a crane will be used to lift scaffolding materials on to the roof on Tuesday morning, beginning at 9am.
As a result, the southbound State Highway 1 one-way would be reduced to one lane between the pedestrian crossing outside Toitu and Queens Gardens.
The footpath would also be closed, but a pedestrian detour would be in place around the work site. The affected lane would reopen before 5pm, he said.
Toitu's Hall of History would also close temporarily while the crane was working overhead, but the rest of the museum would remain open.
Work to renew the roof began in May but was behind schedule due to the discovery of asbestos, Mr Bainbridge said.
The project was now expected to be completed by the end of March next year.