The updated list of 50 best restaurants in Tokyo according to Tabelog users. Like in the case of the best sushi restaurants in Tokyo, many changes have occurred since I first compiled the list.
1. Kyo Aji (kaiseki)
http://tabelog.com/tokyo/A1301/A130103/13002887/
2. Den (modern kaiseki,2*)
http://tabelog.com/tokyo/A1310/A131003/13046855/
http://gm.gnavi.co.jp/shop/0120130141/
3. Quintessence (modern French/kaiseki,3*)
http://tabelog.com/tokyo/0/0/lst/COND-0-0-2-0-0-0-0-0/D-rt/ http://quintessence.jp/
4. Les Saisons (French,1*) http://tabelog.com/tokyo/A1301/A130102/13002294/
http://www.imperialhotel.co.jp/e/tokyo/restaurant/38
http://gm.gnavi.co.jp/shop/0120130236/
5. Takajo Kotobuki (game) http://tabelog.com/tokyo/A1311/A131102/13003661/
6. Kawamura (steakhouse) http://tabelog.com/tokyo/A1301/A130101/13016506/
7. Matsukawa (kaiseki) http://tabelog.com/tokyo/A1307/A130701/13124391/
8. L’Equateur (French) http://tabelog.com/tokyo/A1307/A130702/13121866/
http://equa-teur.com/up/?page_id=489
9. Joel Robuchon (French) http://tabelog.com/tokyo/A1303/A130302/13009310/
http://gm.gnavi.co.jp/shop/0120130099/
10. Saito (sushi,3*) http://tabelog.com/tokyo/A1308/A130802/13015251/http://gm.gnavi.co.jp/shop/0120130109/
11. Florilege (French) http://tabelog.com/tokyo/A1306/A130603/13093814/http://www.aoyama-florilege.jp/en/chef.html
12. L’Effervesence (French,1*) http://tabelog.com/tokyo/A1306/A130602/13116356/
http://www.leffervescence.jp/
http://gm.gnavi.co.jp/shop/0120130237/
13. Miyakozushi ( sushi)
http://tabelog.com/tokyo/A1302/A130204/13018162/
14. Restaurant Bacar (French) http://tabelog.com/tokyo/A1303/A130301/13059355/
http://www.restaurant-bacar.com/
15. Fukuji (fugu) http://tabelog.com/tokyo/A1301/A130101/13004009/http://www.fukuji.jp/
16. Apicius (French)
http://tabelog.com/tokyo/A1301/A130102/13000145/
http://www.apicius.co.jp/
17. Ishikawa (creative kaiseki,3*) http://tabelog.com/tokyo/A1309/A130905/13004079/
http://www.kagurazaka-ishikawa.co.jp/
http://gm.gnavi.co.jp/shop/0120130016/
18. Chez Inno (French)
http://tabelog.com/tokyo/A1302/A130202/13000510/
http://www.chezinno.jp/restaurant/inno_index.html
19. Maison Aimee Vibert (French,1*) http://tabelog.com/tokyo/A1303/A130302/13144931/
http://www.aimeevibert.com/aimee/english/index.html
http://gm.gnavi.co.jp/shop/0120130044/
20. Shinbashi Hoshino (kaiseki,1*)
http://tabelog.com/tokyo/A1301/A130103/13136847/http://gm.gnavi.co.jp/shop/0120130102/
21. Teika Daipaiton (Chinese) http://tabelog.com/tokyo/A1311/A131105/13095915
http://www.teika-daipaiton.com/
22. Azumaya (Izakaya)
http://tabelog.com/tokyo/A1301/A130101/13126819/
23. Côte d’Or (French,1*) http://tabelog.com/tokyo/A1316/A131602/13001681/
http://gm.gnavi.co.jp/shop/0120130080/
24. Aimee Vibert (French) http://tabelog.com/tokyo/A1308/A130803/13017129/ ( the same as N° 19?)
25. La Tour D’Argent (French) http://tabelog.com/tokyo/A1308/A130803/13000288/
http://www.newotani.co.jp/en/tokyo/restaurant/tour/
26. Kurogi (Japanese)
http://tabelog.com/tokyo/A1311/A131101/13094789/
27. Torishiki (yakitori,1*) http://tabelog.com/tokyo/A1316/A131601/13041029/
http://gm.gnavi.co.jp/shop/0120130145/
28. Sawada (sushi,2*) (http://tabelog.com/tokyo/A1301/A130101/13001043/http://gm.gnavi.co.jp/shop/0120130087/
29. Sawaichi Roppongi (Japanese) http://tabelog.com/tokyo/A1307/A130701/13124236/
http://sawaichi.jp/
30. Sushi Ono (sushi)
http://tabelog.com/tokyo/A1301/A130101/13024790/
31. Sancular Bar
http://tabelog.com/tokyo/A1309/A130905/13112228/
32. Morikawa (kaiseki)
http://tabelog.com/tokyo/A1310/A131004/13110601/
33. Kaiseki Yotsuba (kaiseki) http://tabelog.com/tokyo/A1319/A131906/13001131/
34. Il Teatrino da Salone (Italian) http://tabelog.com/tokyo/A1307/A130703/13110652/
http://www.ilteatrino.jp/
35. Lacherir (French)
http://tabelog.com/tokyo/A1316/A131602/13035082/
http://www.lacherir.jp/
36. Kohaku (modern Japanese,2*) http://tabelog.com/tokyo/A1309/A130905/13049130/
http://gm.gnavi.co.jp/shop/0120130082/
37. Hashiguchi (sushi)
http://tabelog.com/tokyo/A1308/A130801/13134517/
38. Chawanbu (kaiseki)
http://tabelog.com/tokyo/A1309/A130903/13122364/
39. Mizutani sushi (sushi, 3*) http://tabelog.com/tokyo/A1301/A130103/13016524/
40. Crescent (French,2*) http://tabelog.com/tokyo/A1314/A131401/13001521/
http://gm.gnavi.co.jp/shop/0120130076/
41. Aronia de Takazawa (kaiseki) http://tabelog.com/tokyo/A1308/A130801/13019663/
http://www.aroniadetakazawa.com/
42. Bingo
http://tabelog.com/tokyo/A1307/A130703/13016523/
43. Nikuyama
http://tabelog.com/tokyo/A1320/A132001/13155313/
44. Yakitori Shinka (yakitori) http://tabelog.com/tokyo/A1307/A130701/13134990/
http://tabelog.com/tokyo/A1322/A132202/13153383/
45. Ristorante Aso (Italian) http://tabelog.com/tokyo/A1303/A130303/13003356/
http://www.hiramatsu.co.jp/eng/restaurants/aso/
46. Les Creations de Narisawa ( French, 2*) http://tabelog.com/tokyo/A1306/A130603/13005423/
http://www.narisawa-yoshihiro.com/
47. Sanchakuya Taka ( Izakaya) http://tabelog.com/tokyo/A1303/A130301/13008327/
48. Sakura Nabe (horsemeat)
http://tabelog.com/tokyo/A1324/A132401/13107961
http://sakuranabe.com/kanemura/
49. 7-rin (yakiniku)
http://tabelog.com/tokyo/A1324/A132401/13021180/
50. Kinriyuzan
http://tabelog.com/tokyo/A1316/A131602/13001625/
