Ok, no idea what the right forum is for this but I'll try this one.
The Music Station this week was one of their 3 hour specials where they did a big countdown. Since I have nothing better to do right now, I transcribed the list as I was watching. I didn't romanize everything perfectly because its late and the list is super long.
It's a pretty good list with a few obligatory wtf moments - such as Greeeen and Juju. (they haven't stood the test of time yet)
It was chosen by a combination of viewers and artists.
Top 100 famous songs:
100. Glay - However
99. Matsuda Seiko - Aoi Sangoshou
98. Judy and Mary - Over Drive
97. Arashi - Love So Sweet
96. Candies - Haru ichiban
95. Miki Douzan - Lifetime Respect
94. Sukima Switch - Zenryoku Shōnen
93. Amuro Namie - Don't Wanna Cry
92. Shuchishin - Shuchishin
91. Fumiya - True Love
90. Kuwata Keisuke - Shiroi Koibitotachi
89. Juju - Ashita ga Kuru nara
88. L'arc en Ciel - Honey
87. Angela Aki - Home
86. X-Japan - Kurenai
85. KAT-TUN - REAL FACE
84. Ohguro Maki - Ra Ra Ra
83. Nakamura Ayumi - Tsubasa no Oreta Angel
82. Unicorn - Daimeiwaku
81. Akikawa Masafune - Sen no Kaze ni Natte
80. The Blue Hearts - Linda Linda
79. Morning Musume - Love Machine
78. Nakamori Akina - Desire
77. uta utai no ballad
76. Shonen no Kaze -
75. Hitoto Yo - Hanamizuki
74. Lindberg - Ima Sugu Kiss Me
73. Bump of Chicken
72. SharonQ - Zurui Onna
71. ayakaxKobukuro - Winding Road
70. Nakashima Mika - Yuki no Hana
69. Chage and Aska - Yah Yah Yah
68. RC - Ame Agari ni Yozora ni
67. Oda Kazumasa - Tashikana Koto
66. Machy - Gin Gira Gin ni Sarigenaku
65. B.B. Queens
64. Begin - Namida sou sou
63. Exile - Lovers Again
62. Anata ni Aete Yokatta
61. Moriyama - Sakura
60. Yamaguchi Momoe - Playback Pt. 2
59. B'z - Ai no Mama ni Wagamama ni
58. Arashi - A.RA.SHI
57. Kome Kome Club - Roman Hikou
56. Mr. Children - Innocent World
55. Tomorrow
54. Boowy - Marrionette
53. Dreams Come True - Nandodemo
52. The Boom - Shimauta
51. Hideaki - Koware Kake no Radio
50. Ulfuls - Banzai ~ suki de yokatta ~
49. Hikaru Genji - Paradise
48. Toshinobu KubotaLA LA LA Love Song
47. Akiko Kobayashi - Koi ni Ochite ~ Fall in Love ~
46. Porno Grafitti - Agehacho
45. Ketsumeishi - Sakura
44. Kinki Kids - Garasu no Shonen
43. Pink Lady - UFO
42. Puffy - Asia no Junshin
41. ayaka - Mikazuki
40. SMAP - Yozora no Mukou
39. Orange Range - Hanabi
38. Nakayama Miho & WANDS - Sekaijuu dare yori kitto
37. Yuzu - Natsu Iro
36. B'z - Ultra Soul
35. KAN - Ai wa Katsu
34. Southern All Stars - Itoshi no Erii
33. Rubi no Yubiwa
32. Imai Miki - Pride
31. Utada Hikaru - Flavor of Life
30. Ayumi Hamasaki - Seasons
29. Aoyama Thelma - Soba ni Iru ne
28. Yamashita - Christmas Eve
27. Donna toki mo
26. Otsuka Ai - Sakuranbo
25. Oda Kazumasu - Love Story
24. Matsuda Seiko - Akai Sweet Pea
23. Remioromen - Konayuki
22. Kiroro - Nagai Aida
21. Exile - Choo Choo Train
20. yosui inoue - Shonen Jidai
19. Hirai Ken - Hitomi wo Tojite
18. Arashi - ONE LOVE
17. Watanabe Misato - My Revolution
16. Chage & Aska - Say Yes
15. Aiko - Kabutomushi
14. Spitz - Cherry
13. Utada Hikaru - First Love
12. Shuuji to Akira - Seishun Amigo
11. Fukuyama Masaharu - Sakurazaka
10. Kobukuro - Tsubomi
9. Zard - Makenaide
8. Mr. Children - Tomorrow Never Knows
7. Amuro Namie - Can You Celebrate?
6. Southern All Stars - Manatsu no Kajitsu
5. Greeeen - Kiseki
4. Dreams Come True - LOVE LOVE LOVE
3. Ozaki Yutaka - I Love You
2. Southern All Stars - Tsunami
1. SMAP - Sekai no Hitotsu Dake no Hana