I am in Japan right now, the trains are just as expected, they work, it's on a track....everything can be controlled so it should be on time. Things I have noticed:-
1 - The Conductor bow when he enters and exits the cart, they are super polite
2 - People don't talk and if they do, they whispers. (the loud people are tend to be foreigners, and most of them are Chinese)
3 - it's clean, very clean
4 - trains are on time, VERY much on time. I saw a guy thinking a train was late and got a time table out checking (Google maps tells me it's not due another 2 mins), he looked very surprised to think it was late, even when it's not.
5 - I have now been on the Shinkansen across half of Japan, underground in over 3 different cities and they are all efficient.
I commuted by train for 8 years, it's dirty, it's late a lot, I have had trains cancelled and stop mid point for all kinds of reasons. If it gets me home 10mins of ETA I would be happily surprised.
p.s. I have seen that video before lol. I went through rush hour with my luggage and that never seen that happened.