Here is a list of restaurants in Japan that provides Halal foods and beverages for consumption Muslims. Note : Not all of them are certified Halal. Look at the top of each category.
Category M: Using halal meat
Category O: The owner or chef is Muslim
Category A: No alcohol
Category V: vegetarian menu
Category C: Halal Certification
TOKYO
Red and White Cafe (Indonesia)
Category: M + O
Nearby Stations: Shinokubo
Shin Okubo Initial House 304, Hyakunincho 2-10-9, Shinjuku-ku Tokyo
Phone: 03-6279-2399
Bosphorus Hasan (Turkey)
Category: M + O
Nearby Station: Shinjuku
Dai Ichi Tamaya Bldg., 2F, 3-6-11, Shinjuku, Shinjuku-ku Tokyo
Phone: 03-3354-7947
Rasa Malaysia (Malaysian)
Category: M + O
Nearby Stations: Ginza
4F, Hashimoto Bldg., 1-6-6, Shinjuku, Shinjuku-ku, Tokyo
Phone: 03-3209-9315
Ginza Raj Mahal (India)
Category: M
Nearby Stations: Ginza
Taiyo Bldg 4F, 8-8-5, Ginza, Chuou-ku, Tokyo
Phone: 03-5568-8080
Shinmarunouchi Bldg 5F, 1-5-1 Marunouchi Chiyoda-ku, Tokyo
Phone: 03-5224-8080
Jow Bldg 5F, 30-5 Utagawa-cho, Shibuya-ku, Tokyo
Phone: 03-3770-7677
Samrat (India)
Category: M
Nearby Stations: Roppongi
Shojikiya Bldg 2F, 10-10, 4chome, Roppongi, Minato-ku, Tokyo
Phone: 03-3478-5877
Marhaba (Pakistan)
Category: M + O + A
Nearby Stations: Ikebukuro
Palace Garden Milano 1F, 2-63-6 Ikebukuro, Toshima-ku, Tokyo
Phone: 03-3987-1031
Iranian Zakuro (Uzbekistan)
Category: M + O
Nearby Stations: Nippori
Taninaka Stadio 1F, 3-13-2 Nishinippori, Arakawa-ku, Tokyo
Phone: 03-5685-5313
Pamukkale (Turkey)
Category: M + O
Nearby Stations: Kichijoji
Toshin Building 5F, 3-21-7 Shinjuku, Shinjuku-ku Tokyo
Phone: 03-5366-9560
Malaychan (Malaysia)
Category: M
Nearby Stations: Ikebukuro
Nishiikebukuro 3-22-6, Toshima-ku, Tokyo
Phone: 03-5391-7638
ALADDIN (Iran)
Category: M + O
Nearby Stations: Roppongi
Yasuda Roppongi Building 2F, 3-2-6 Nishiazabu, Minato-ku Tokyo
Phone: 03-3401-8851
Ruen Rung (Thailand & Korea)
Category: M + O + A
Nearby Stations: Shinokubo
Sugamata House 1F, 1-13-9 Hyakunincho Shinjuku-ku, Tokyo
Phone: 03-3366-9644
Kusei Corpo 1F, 5-2-13 Tabata Kita-ku, Tokyo
Phone: 03-3824-0944
Tam Tam (Morocco)
Category: M + O + A
Nearby Stations: Nishiogikubo
Shoan 3-18-15, Suginami-ku, Tokyo
Phone: 03-6362-3968
Uskudar (Turkey)
Category: M + O
Nearby Station: Shinjuku
Komiya Bldg 2F, 3-35-1 Shinjuku-ku, Tokyo
Phone: 03-3354-9164
Asena (Turkey)
Category: M + O
Nearby Stations: Akasaka
Koyu Akasaka Bldg 1F, 2-8-13 Akasaka Minato-ku, Tokyo
Phone: 03-6230-2238
The Potohar (Pakistan)
Category: M + O
Nearby Station: Shinjuku
TK Bldg 1F, 3-23-5 Yoyogi, Shibuya-ku
Phone: 03-5371-3305
Palmyra (Arabic)
Category: M + O
Nearby Stations: Ikebukuro
TO Bldg 2F, 2-58-8 Ikebukuro, Toshima-ku, Tokyo
Phone: 03-3981-8293
Tsukinosabaku (Arabic)
Category: M + O
Nearby Stations: Ikebukuro
Higashiyama Bldg 2F, 1-26-5 Nishiikebukuro, Toshima-ku, Tokyo
Phone: 03-3980-7057
Siddique Restaurant (Pakistan)
Category: M + O
Nearby Stations: Akasaka
2-12-2 Hirakawa-cho, Chiyoda-ku, Tokyo
Phone: 03-3262-3370
Nissin Daini Bldg 2F, 7-10-20 Shinjuku, Shinjuku-ku, Tokyo
Phone: 03-5925-2259
Ningyoucho 1F 2-1-3 Nihonbashi, Chuou-ku, Tokyo
Phone: 03-3666-0132
Basmati (Bangladesh)
Category: M + O
Nearby Stations: Kinshicho
Kinshi 3-13-1, Shinjuku-ku, Tokyo
Phone: 03-3621-0270
KYOTO
Istanbur Saray (Turkey)
Category: M + O
Nearby Stations: Kyoto Shiyakusho-mae
Matsuki Building 3F, 534-28 Ebisu-cho, Kawaramachi Sanjo North of st, Higashiyama-ku, Kyoto
Phone: 075-213-2995
KERALA (India)
Category: M
Nearby Stations: Kyoto Shiyakusho-mae
KUS BLD, 2F, Kawaramachi Sanjo agaru, Higashiyama-ku, Kyoto
Phone: 075-251-0141
La Baraka (Morocco)
Category: M + O
Nearby Stations: Kawaramachi
Sakura Building B1, 365 Bukkoji kudaru Tominaga-cho, Kawaramachi st, Shimogyo-ku, Kyoto
Phone: 075-352-8208
Minokichi Shinhankyu Hotels (Japan)
Category: M
Nearby Stations: Kyoto
Shinhankyu hotels B1F, Higashi Shiokojishinmachi hairu, Shimogyo-ku, Kyoto
Phone: 075-343-5327
Rose cafe (Turkey)
Category: M + O + A + C
Nearby Stations: Jingumarutamachi
88-3 Miyagaki-cho Kawaramachi Kojinguchi Noboru st, Kamigyo-ku, Kyoto
Phone: 075-252-2923
NAGOYA
SAME SAME INDONESIAN RESTAURANT
Category: M + O
Nakaku 3-9-1 Sakae Shinwa Blue
Phone: 052-242-1220
CASABLANCA (Morocco)
Category: M + O
Nearby Stations: Takaoka
Takaoka Resience 1F, 1-9-14 Izumi, Higashi-ku Nagoya
Phone: 052-953-7774
Turkish Taste (Turkey)
Category: M + O + A
Nearby Stations: Honjin
Torii-dori 2-30-1, Nakamura-ku, Nagoya
Phone: 052-482-8999
Bunga Raya (Malaysia)
Category: M + O + A
Nearby Stations: Yabacho
Asian Academy Tairiku B1F, 4-1-11 Osu, Naka-ku, Nagoya
Phone: 052-263-5152
SARI RAYA
CATEGORY: M + O + A + C
68-10 Higashi Hachimanyama, Yamashita-Cho, Nishio-shi, Aichi 445-0887, Japan.
GANDHAARA RESTAURANT (Pakistan)
Category: M + O + A
Nearby Stations: Honjin
Hioki Santopia 1F, 2-14 Nishihioki, Nakagawa-ku, Nagoya
Phone: 052-331-4848
Taxim (Turkey & Italy)
Category: M + O
Nearby Stations: Takaoka
Glandor Higashisakura 1F, 15-39 Higashisakura 2chome, Higashi-ku Nagoya
Phone: 052-931-3131
Nasreddin Hoja (India)
Category: M + O + A
Nearby Stations: Nagoya Daigaku
358-1 Miyahigashi-cho, Showa-ku, Nagoya
Phone: 052-782-0731
OSAKA
Nazar (Turkey)
Category: M + O
Nearby Stations: Shinsaibashi
Matsumura building 2F, 1-16-13 Shinsaibashi, Chuo-ku, Osaka
Phone: 06-6282-0630
MUGHAL (Pakistan)
Category: M
Nearby Stations: Honmachi
Nishihonmachi 2F 1-6-7, Nishi-ku Osaka
Phone: 06-6110-7371
Sinasos (Turkey)
Category: M + O
Nearby Stations: Umeda
16-12, Doyama-cho, Kitaku, Osaka
Phone: 06-6885-5139
Hafez (Turkish & Persian)
Category: M + O
Nearby Stations: Umeda
Phone: 06-6538-8830
Pyramids (Egypt)
Category: M + O + A
Nearby Stations: Nakatsu
6-8-1, Nakatsu, Kita-ku, Osaka
Phone: 06-6346-1224
Konak (Turkish)
Category: M + O
Nearby Stations: Umeda
1-11-1 Minami Horie
Phone: 06-6534-7277
Ali's Kitchen (Pakistan)
Category: M + O
Nearby Stations: Shinsaibashi
1-10-12 Shinsaibashisuji, Chuou-ku, Osaka
Phone: 06-6553-2292
Meya Meya (Egypt)
Category: M + O + A
Nearby Stations: Nakatsu
Mitsuwa building 2F,
3-15-12, Toyosaki, Kita-Ward, Osaka
Phone: 06-6373-3993
Sharimar (Pakistan)
Category: M + O
Nearby Stations: Nakatsu
1-5-1 Nakatsu, Kita-ku, Osaka
Phone: 06-6373-7068
MUQAM (China)
Category: M + O
Nearby Stations: Namba
2-2-8 Dotonbori, Chuou-ku, Osaka
Phone: 06-6211-8288
KARAKUS (Turkey)
Category: M + O
Nearby Stations: Namba
Namba-naka 2-5-9
Phone: 06-6644-7522
Shama (India)
Category: V
Nearby Stations: Umeda
Kurasho building B1F, 1-3-7 Kitahorie, Nishi-ku, Osaka
Phone: 06-6536-6669 V オーナーがクリスナ, メニューが全てベジタリアン対応
KOBE
AARTI (India)
Category: M + O
Nearby Station: Sannomiya
Hunter Bldg. 1F, 2-14-13, Nakayamate Dori, Chuo-ku, Kobe-shi, Hyogo-ken
Phone: 078-222-8665
Caydacira (Turkey)
Category: M + O
Nearby Station: Sannomiya
ALBA Kitanosaka Building 1F 7-2 ,4-Kanou-cho, Chuou-ku, Kobe
Phone: 078-331-0066
MURAT (Turkey)
Category: M + O
Nearby Station: Sannomiya
Subway side building 8F, 1-4-5Nakayamatedori, Chuou-ku, Kobe
Phone: 078-392-3515
Cafe Chameau (Tunisia)
Category: M + O
Nearby Stations: Sannnomiya
Eru Yamate Building 104, 2-13-9 Nakayamatedori Chuou-ku, Kobe
Phone: 078-242-0907
JICA Kansai Shokudo (Asia)
Category: M
Nearby Stations: Tone
Wakihama Kaigandori 1-5-2, Chuou-ku, Kobe-shi
Phone: 078-261-0341