When docking in Anjiro, after Lord Taranago has inspected Yabu's troops, just as he's boarding the ship again, a motorboat is clearly visible in the background, sailing from left to right.
In the 3 part TV mini-series, this happens around 57'30'' through the 2nd episode.
At arund 1 min) They are discussing the roads in Japan. If you look in the background you can see the hillside has been cut back for the road. Then there is a scene of them "in camp" and the following day they are traveling again. When they tilt up after the priests leave you can see it is the same road and they are now traveling toward the cut that was visible "the day before".
Not long after "Father Alvito" talks about the lack of wheeled vehicles in Japan the procession comes to a small hut on the side of the road (the point where the "Father" leaves them) with the junction of two other roads, The road at the junction has grass strips growing up the middle that denote wheeled vehicle traffic. (approx 1:24:30)