Well I had many fewer images than I thought.  Though I took some film images as well but just haven't had them developed yet and that's more than likely where my confusion came from:
Obviously there are major issues with the replica in regards to plan profile and side elevation.  I also believe the Hunley's hull bolts were countersunk?  Correct me if I'm wrong on that, though having seen the vessel in its tank that is one detail that is escaping me...hence I wish I could have taken photos to help with the ole memory:    
 
   
 Last one is a shot of a fiberglass mould of the actual Hunley's cross section as seen in the exhibit at the Hunley: 
 
 Were I to make a model of the Hunely I think I would be easily swayed to study Chapman's painting as history is finally showing us that he was the most accurate of all those who have portrayed her over the years.