What package where these point clouds surfaced in. Scanto3d gives you the ability to surface the point cloud too, but this can be time consuming as well. Can whoever created the surfaces from the scan recreate it trying to improve their surfacing.
Can you isolate the ripples with a cylindrical surface, trim them out, and then use a surface fill to fill this hole.
You could delete the face alltogether and then attempt to recreate it using a surface fill tangent to the surounding surfaces. You may want to use constraint curves, so do the fill after the delete face.
Recreating the surfaces with lofts and sweeps may be the way to go. Ripples are often created when you do a loft and try to maintain tangency to the boudary surfaces.
Creating a loft or sweep on its own to recreate the surface, and then using extend surface on that surface and all surrounding will help you trim them to one another. Then use fillets to smooth out the edges.
Just some thoughts,
RFUS