Connecting Passengers not accounted for income?

Here are two different route incomes for my airline, with different prices. The strange thing is, in both occasions the routes have nearly the same load ratio (near %100, in one case with connecting passengers for eco class and in the other case without connecting passengers..) But with connecting passengers filling my economy class capacity i get 25.098$ and on the other hand without connecting passengers i get 38.232$. So here is the question:
is this some kind of a bug? Or do the connecting passengers are not accounted for a route income?