Following the lead of John Walton with #JohnDoesJapan I compiled a list of the different trains/trams/etc that I took on my trip and updated a thread on Bluesky #MarkDoesJapan with them. I could just point you at the thread but a more permanent solution is to document it here, plus I’ve fixed some errors. I’m still missing a number of Tokyo Metro lines and their equipment since I was more concerned with getting on the train than taking pictures of it, lines include at least Saikyo, Chiyoda, and Tozai.

1. 

   Limited Express Sōya (Series 261-0)

2. 

   Limited Express Lilac (Series 789)

3. 

   Sapporo Subway (Namboku line)

4. 

   JR Hokkaido 733-0 Series

5. 

   JR Hokkaido 721-0 Series

6. 

   Rapid Airport (JR Hokkaido 721-3000 Series)

7. 

   JR Hokkaido H100 series

8. 

   Limited Express Hokuto (Series 261-1000)

9. 

   Hakodate 8000 Series tram

10. 

    Hakodate 9600 Series tram

11. 

    JR Hokkaido 733-1000 Series

12. 

    Hakodate 2000 Series tram

13. 

    South Hokkaido Railway KiHa 40-1000 Series

14. 

    E5 series Shinkansen

15. 

    Limited Express Tsugaru (E751 series)

16. 

    Konan Railway Tôkyû class 7000

17. 

    701-0 series

18. 

    W7 series Shinkansen

19. 

    Limited Express Shinano (383 Series)

20. 

    Alpico (Kamikochi Line)

21. 

    211 Series

22. 

    Limited Express Azusa (E353 series)

23. 

    E127-100

24. 

    JR West KiHa 120

25. 

    Toyama Chihou Railway Type 10030

26. 

    Kurobe Gorge Railway (EDR class loco/1000 open car)

27. 

    Toyama Chihou Railway Type 17480

28. 

    Ainokaze Toyama 521-0 Series

29. 

    Limited Express Thunderbird (683 series)

30. 

    N700A Shinkansen

31. 

    Sanyo Electric Railway 5030 Series

32. 

    Hankyu Railway 1000 Series

33. 

    JR West 223 Series

34. 

    JR West 227-500 Series

35. 

    Takamatsu-Kotohira Electric Railroad 1080 Series

36. 

    JR Shikoku 1500 series

37. 

    Rapid Marine Liner (5000 series)

38. 

    Okayama 7000 Series Tram

39. 

    500 Series Shinkansen

40. 

    Hiroshima T5100 Tram

41. 

    Hiroshima 3900 Tram

42. 

    JR West 227-0 (Red Wing)

43. 

    Nishikigawa Railway NT3000 series

44. 

    Tokotoko train

45. 

    JR West 115 Series

46. 

    Limited Express Relay-Kamome (787 series)

47. 

    Nishi-Kyushu Shinkansen

48. 

    Nagasaki Type 5000 tram

49. 

    Nagasaki Type 1500 tram

50. 

    Nagasaki Type 1700 tram

51. 

    Nagasaki Type 300 tram

52. 

    JR Kyushu YC1 series

53. 

    Limited Express Hius Ten Bosch (783 series)

54. 

    Fukuoka subway

55. 

    N700-7000 Shinkansen

56. 

    Kagoshima Type 9500 tram

57. 

    800 Series Shinkansen

58. 

    N700S Shinkansen

59. 

    Tokyo Metro 2000 series (Marunouchi Line)

60. 

    Tokyo Metro 17000 series (Yurakucho Line)

61. 

    E235 Series (Yamanote Line)

62. 

    E233-3000 Series

63. 

    Shonan monorail 5000 Series

64. 

    Enoshima Electric Railway Type 500

65. 

    Odakyu Electric Railway 3000 Series

66. 

    Toei Series 8500 (Sakura) Tram