The "fixing" they are talking about here is named MeshMedic,
1) Weld any overlapping shells together into single "convex" shells
2) Removes any internal geometry that would otherwise create voids
3) Remove tiny unconnected shells that are too small for the printer to print.
MeshMedic was developed in concert with the Netfabb company has been in place for 9+ years. It is not "thickness repair".
If you want to limit the effects of MeshMedic, then you can run your model thru Netfabb Public
https://tools3d.azurewebsites.net/ which is fundamentally the same tool as MeshMedic, but you get to review the output yourself before uploading to Shapeways. I use it for 90% of my models.
PS: welding the shells together prevents them from counting separately for part and volume calculations.