Thanks for the report, I see that too as well as custom UVs not being correct. I’ve filed both issues here
http://mcneel.myjetbrains.com/youtrack/issue/RH-32867
http://mcneel.myjetbrains.com/youtrack/issue/RH-32866
I don’t see this here using OBJ and either Export or SaveAs. I am using the latest internal build of Rhino though since there likely won’t be another v5 service release. I can get the “.001” material suffix in Blender if I had previously tested an import with the same material name. Maybe that’s it on your end too.
I know what you mean, I don’t know if we could write out a Blender instance or for that matter any of the other poly modelers instance definitions. My hunch is Blender might be the most accessible… I wonder if it would be possible using Python in Rhino. We’d need a developer who knows both platforms and the only one I know of is @nathanletwory who is currently absorbed by the Rhino Cycles project.