The Nathan Draper who married Hannah Whiting was from the old home place (the Dedham - Roxbury area), whereas his distant cousin Nathan Draper Jr. was from eastern Connecticut.
Our Nathan Draper (Jr.)'s service records at the National Archives show that he served from Killingly, Connecticut at the time of the Battle of Saratoga.Must have liked the area, as he moved to the vicinity (albeit east of the Hudson) after the war.
There are more than a few Nathans and Nathaniels in this family.As far as I can tell, the popularity of these given names comes from the maternal lines, where one finds the Great Migration progenitors Nathaniel Whiting and Nathaniel Aldis sometimes called Nathan.
To return to the 18th century, the marriage of Nathan Draper (Jr.) and Hannah Whittemore is found in the records of the Brooklyn Church.(Brooklyn, Ct. is across the Quinebaug/French River from Killingly.)Note that Killingly in those days was a very large town, encompassing what is now Putnam and Thompson.I think the actual Draper homestead was in what's now Putnam, though I haven't nailed that down precisely yet.
Hannah's maiden name is correctly given as Whittemore - short "i" and three syllables.But sometimes one finds it spelled with only one t.
Further proof of the relationship is found in a deed at Killingly by which Nathan and Hannah Draper released their interest in the property of her "honor'd father Richard Whittemore."