Hi M.D.,
It is such a shame we lost Gary Brumfield (Past Master at the Colonial Williamsburg Gun Shop) to cancer a few years ago, because I think we would all learn a lot as to how he would have answered how they might have done it.
At risk of repeating myself, I would think a period gunsmith would have reamed the cone shape near the muzzle, after reaming the bore and before rifling the barrel. That would have made the most concentric cone possible near the muzzle. Further, since the rifling was normally at least .010" deep and often .012" to .014" deep, that would mean when the barrel was rifled, the very bottom of the rifling would have come close to the muzzle, even after it was reamed in a concentric cone. That would have saved A WHOLE BUNCH of hand filing and of course the bottom of the rifling near the muzzle would have been a much surer and easier guide to deepen the grooves by hand filing at the muzzle.
In the following link on Gary Brumfield's old site, it shows how they used a square reamer to finish ream the bore smooth before rifling. Before his passing, Gary had mentioned that they could normally hold a tolerance of between .001" to .002" throughout the bore and no more than .003" larger in the bore and especially at the breech - where reaming was always started.
A shorter tapered square reamer could easily have made a fairly concentric cone (and MUCH MORE concentric than possible by hand filing), when used in conjunction with a "sliver of wood as a guide" similar to the reamer photo image above the caption,
"Two views of the square reamer and its wooden backing strip. Only the two corners opposite the hickory strip cut. As Wallace said in the Gunsmith of Williamsburg film, "the borings are as fine as face powder."
http://flintriflesmith.com/ToolsandTechniques/barrel_making.htm
Now of course this is only informed speculation or a S.W.A.G. at best on how they could have done it, but it is a way they could have done it with the technology readily available even in remote one or two man gun shops.
Gus