A single vertical flue has rather limited surface area and is not very well heated as there is nothing impeding the hot gases of combustion from doing that which they most naturally do, ie: rise rapidly and exit out the chimney with only minimal brief contact with the part of the flue in contact with the boiler's water. It is usually best to have several small water tubes crossing the vertical flue to slow the heat rising and provide significant increased surface area of heating. In lieu of that, then multiple smaller flues is a good way to increase the heating surface area and is often used.
As for the "Metallic Smell" I would suggest that if it has never been heated before, that might not be unusual. It is also possible that it is assembled with certain dissimilar metals that are not quite at ionic equilibrium with each other, thus heating would instigate or accelerate any galvanic reaction that is "potentially" (pun intended) extant!?!?
If that is the case, then you may well get that smell every time you fire up, though likely less as time goes by. It is unlikely that you will note any significant deterioration in your lifetime, but depending on the metals involved, it is possible!