Some of the edges to each roof section may not be correct and may need to be edited.
Select one section of the roof cladding, not the roof itself, open the Roof Builder tool and select edit edges.
Here you can select each edge of that section of roofing and tell it what it should be, such as ridge, gutter, valley, etc.
Repeat this with each roofing section.
The roof can look okay in the plan view, but not okay in 3D or elevation unless the edges are correct.
Ian c