Cheap Flights from El Nido to Tokyo

Compare El Nido to Tokyo flight deals

Find the cheapest month or even day of the year to fly to Tokyo

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Flight deals from El Nido to Tokyo

Looking for a cheap last-minute deal or the best return flight from El Nido to Tokyo? Find the lowest prices on one-way and return tickets right here.

Find the cheapest month to fly from El Nido to Tokyo

We’re always keeping an eye on fares, so you can find the best one in seconds. It looks like El Nido to Tokyo flights are currently cheapest in June.

Alternative El Nido to Tokyo routes

Looking for the cheapest, fastest or easiest route from El Nido to Tokyo? You could fly into the following airports instead.

El Nido to Tokyo: Flight information

The things to know before you go.
Cheapest flight foundج.م.‏ 6,104
Cheapest month to flyJune

Finding cheap flights from El Nido to Tokyo: Frequently asked questions

There are 3 airports in Tokyo: Tokyo Haneda, Tokyo Narita and Ibaraki.
The best price we found for a return flight from El Nido to Tokyo is ج.م.‏ 15,593. This is an estimate based on information collected from different airlines and travel providers over the last 4 days and is subject to change and availability.
Currently, there are no airlines that fly direct from El Nido to Tokyo. But we found flights with one or more stops from ج.م.‏ 15,593.
As of February 2026, there are no flights flying from El Nido to Tokyo.
The cheapest month to fly from El Nido to Tokyo is usually July.
If you're flying from El Nido Airport, the cheapest airport near Tokyo is Tokyo Narita – which is 63.7 km away from the centre of Tokyo. We've found flights into this airport from ج.م.‏ 15,593.
After crunching the numbers on our flight calendar, we found that it's currently cheapest to fly from El Nido Airport to Tokyo on Sunday, 12 July 2026.
No airlines currently offer direct flights between El Nido Airport and Tokyo. Most routes have one or more stops.
We show every price from over 1,200 airlines and travel agents, comparing them all so you don’t have to. If you know you want to fly to Tokyo but you’re not ready to book, set up a Price Alert. We’ll track prices for you, and let you know when they rise or fall.
We crunched all the numbers in our flight calendar and it looks like the cheapest time to book a flight to Tokyo is around 40 days in advance, so don’t leave your flight to the last minute.
In February, the average temperature is usually around 16°C. August is typically the warmest month in Tokyo, when it usually averages around 28°C. You can expect the least rain in February. The coldest month is February, with temperatures averaging 15°C. The rainiest month is May.
Currently, Cebgo offers the cheapest flight tickets to Tokyo.

Flying from El Nido Airport (ENI) to Tokyo: what you need to know

  • Tokyo is one hour ahead of El Nido, where El Nido Airport is located. Tokyo runs on the UTC+9 timezone.

  • For hassle-free travel, arrive at the airport two hours ahead of international flights and one hour before domestic departures. This will give you plenty of time to board your ENI to Tokyo flight.

  • Heading away during a peak time like school or public holidays? Expect longer lines at check-in and security. To be on the safe side, arrive up to four hours before international flights and two hours before domestic departures.

  • Located around 0.97 kilometres from central El Nido, ENI can be reached in about 5 minutes by car (depending on traffic). The journey on public transport will take roughly 15 minutes.

  • Planning to catch an early flight from El Nido Airport to Tokyo? Avoid the hassle of rushing to the terminal (and catch some extra z's) by choosing one of these hotels close to ENI:

How to find the cheapest flights from El Nido Airport (ENI) to Tokyo

  • The lowest price we've seen for a one-way El Nido Airport to Tokyo flight is ج.م.‏ 6,104. The cheapest price for a return flight is ج.م.‏ 15,593. Bear in mind fares may change due to availability at the time of booking.

  • Booking early is often the key to securing a cheap flight from ENI to Tokyo. Prices tend to rise as demand increases, so the closer you get to departure, the more you'll likely spend.

  • Finding cheap tickets from El Nido Airport to Tokyo is easier if you're flexible with your travel plans. Try using the 'Whole month' tool to access the lowest fares across every month and pick up a fantastic deal.

  • Locking in a cheap flight from ENI to Tokyo is a breeze with Price Alerts. All you need to do is create one of these automatic notifications and we'll notify you when the price has dropped.

  • Snag an affordable flight from El Nido Airport to Tokyo with the help of our filters. Select your preferred duration, number of stops and airlines, then sort the results by 'Cheapest' to see the best deals.

Airports in Tokyo

Haneda Airport (HND)

  • The distance from Haneda Airport (HND) to central Tokyo is roughly 16 kilometres. It takes about 15 minutes to get to the centre driving.

  • The last thing you need is a long journey to your hotel if you're landing late on a flight from El Nido Airport to Tokyo. Check in to one of these accommodation options near HND instead:

  • Say yes to new adventures by picking up a Haneda Airport rental car. Grab your wheels from Europcar, Nissan Rent a Car or Times to explore Tokyo and beyond.

  • Lock in the lowest price by booking your ride from Haneda Airport about three weeks ahead of your flight from ENI to Tokyo.

  • The address for HND is 3丁目 Hanedakuko, Ota.

Narita International Airport (NRT)

  • After your flight from El Nido Airport to Tokyo has landed, you can make your way to the city centre in about 1 hour by car. Central Tokyo is roughly 64 kilometres from Narita International Airport (NRT).

  • There are some comfortable places to call home for the night near NRT. Tuck yourself in and get cosy after your ENI to Tokyo flight at any of these perfectly located options:

  • Forget about inconvenient public transport schedules or waiting forever for a cab. Pick up a Narita International Airport rental car and take your trip in whatever direction you choose. Check out the rates and availability from Airport Car Hire, JDM Rent a car and Miki Car Hire.

  • Get first dibs on the best options. Reserving your ride from NRT four weeks ahead of time often means lower prices and a wider range of vehicles.

  • Narita International Airport is located at 成田空港第2PTB(バス), Narita.

Best time to go to Tokyo

  • Before scheduling your flights from El Nido Airport to Tokyo, consider which time of year works best for you. High season in Tokyo offers a lively atmosphere and plenty of activities, while the off-season means you'll get cheaper hotel rates and fewer crowds.

  • Before locking in your El Nido Airport to Tokyo flight ticket, think about the weather you're most comfortable in. August is the warmest month in Tokyo, with temperatures ranging from 26ºC to 29ºC.

  • Search for cheap tickets from ENI to Tokyo in February if you'd rather travel during cooler conditions. Temperatures are at their lowest then, ranging between 15ºC and 20ºC on average.

More about Tokyo

  • When it comes to looking for somewhere to lay your head, you'll find the most popular stays in Tokyo right here. Check out these hotels as soon as you've locked in your flight from El Nido Airport to Tokyo:

  • Every great adventure has to include some sightseeing. Senso-ji Temple Yogodo, Tokyo Tower and Mag's Park Rooftop Shibuya Crossing are attractions you won't want to skip in Tokyo.

Explore more of Japan

  • You've done Tokyo, now it's time to explore other parts of Japan. Journey about 402 kilometres west to Osaka to tick off its leading sights. From Osaka Castle to Dotonbori and Universal Studios Japan, you'll have a packed itinerary ahead.

  • If there's time to check out another great destination in Japan, consider Nagoya, roughly 257 kilometres west of Tokyo. Nagoya Castle, Atsuta Shrine and Osu Kannon Temple are key highlights.

Prices shown on this page are estimated lowest prices only. Found in the last 45 days.