In Tokyo, pure “Jain-only” restaurants are not really there, but a few Indian / vegetarian places are known to prepare Jain food on request:

1. Nataraj (Indian Vegetarian) – multiple branches

• 100% vegetarian Indian chain in Tokyo.
• They explicitly mention that Jain meals can be prepared on request. ( jainknowledge.com)

2. Veg Kitchen Tokyo (Indian, Vegetarian / Vegan)

• Fully vegetarian/vegan restaurant serving Indian food.
• Their description clearly says they serve Jain and vegan food. ( vegkitchentokyodotcom.wordpress.com)

3. Nirvanam (South Indian)

• Indian restaurant (several branches in Tokyo).
• Known to be open to Jain requests if you ask in advance (simple curries, rice, etc. without onion/garlic and roots). ( getset4japan.com)

4. Govinda’s (ISKCON Tokyo)

• Temple kitchen / restaurant, no onion and no garlic by default.
• Often can adjust closer to Jain (avoid roots etc.) if you explain clearly. ( getset4japan.com)

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How to ask for Jain food in Tokyo

Wherever you go, clearly say (or show on paper):

• No onion, no garlic
• No potato, carrot, radish and other root vegetables
• No mushroom
• No egg, meat, fish
• No alcohol, no mirin (sweet cooking wine), no sake
• No fish stock / dashi / katsuobushi

Most Jain travellers in Japan rely on Indian vegetarian places + clear instructions, and sometimes cook themselves. ( risingdestinations.com)

For a simple Jain-friendly Japan food guide (including Tokyo), you can read more here