Cheap Flights from Kota Kinabalu to El Nido

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Compare Kota Kinabalu to El Nido flight deals

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Flight deals from Kota Kinabalu to El Nido

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

Find the cheapest month to fly from Kota Kinabalu to El Nido

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

Kota Kinabalu to El Nido: Alternative routes

Compare routes from Kota Kinabalu to El Nido below. You may find an airport to fly into that's cheaper, faster, or easier than El Nido.

Kota Kinabalu to El Nido: Flight information

The things to know before you go.
Cheapest flight foundR 2,091
Cheapest month to flyNovember

Finding cheap flights from Kota Kinabalu to El Nido: Frequently asked questions

The best price we found for a return flight from Kota Kinabalu to El Nido is R 4,572. 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 Kota Kinabalu to El Nido. But we found flights with one or more stops from R 4,572.
As of June 2025, there are no flights flying from Kota Kinabalu to El Nido.
The cheapest month to fly from Kota Kinabalu to El Nido is usually June 2025.
After crunching the numbers on our flight calendar, we found that it's currently cheapest to fly from Kota Kinabalu Airport to El Nido Airport on Monday, 29 September 2025.
No airlines currently offer direct flights between Kota Kinabalu Airport and El Nido Airport. 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 El Nido 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 El Nido is around 40 days in advance, so don’t leave your flight to the last minute.
Currently, Philippines AirAsia offers the cheapest flight tickets to El Nido.

Travelling from Kota Kinabalu International Airport (BKI) to El Nido Airport (ENI): what you need to know

  • To ensure you catch your BKI to ENI flight, leave plenty of time to check in and find your gate. Arriving two hours ahead of international departures and an hour before domestic flights is the standard rule.

  • Travelling during a peak time like August? Public holidays and other popular periods can result in longer queues at security. Play it safe and get there up to four hours ahead of an international flight and two hours before a domestic departure.

How to find the cheapest flights from Kota Kinabalu International Airport (BKI) to El Nido Airport (ENI)

  • R 2,091 is the best price for a one-way Kota Kinabalu International Airport to El Nido Airport flight. A return flight starts from R 4,572. These fares may change based on availability.

  • It's usually smart to book ahead of time if you're hoping to get cheap tickets from BKI to ENI. That's because airlines adjust prices based on demand, which tends to increase closer to the date of departure.

  • If you can be flexible with your trip dates, use the 'Whole month' search function. It'll show you the lowest price in every month when searching for your flight from Kota Kinabalu International Airport to El Nido Airport.

  • Landing cheap flights from BKI to ENI is a cinch with Price Alerts. All you need to do is create one of these automatic alerts and we'll notify you when a new discounted fare appears.

  • Select your ideal arrival and departure times, number of stops and airlines with the filters. Or sort your results by 'Cheapest' to see the best deals on flights from Kota Kinabalu International Airport to El Nido Airport.

Handy information about Kota Kinabalu International Airport (BKI)

  • When it comes to Kota Kinabalu International Airport's on-time performance, 73.51% of flights arrive within the scheduled timeframe.

  • Kota Kinabalu International Airport is around 8 kilometres from central Kota Kinabalu. If you're driving, catching a cab or ride-sharing from the centre, it'll take you 15 minutes or so to get there, depending on the traffic.

  • Get your break off to a hassle-free start by staying near BKI. Whether you're boarding an early flight from Kota Kinabalu International Airport to El Nido Airport or just don't want to be rushed, these stays are the answer:

Arriving at El Nido Airport (ENI)

  • Consider booking a hotel near ENI if you're on a late Kota Kinabalu International Airport to El Nido Airport flight. Select one of these accommodation options and skip the long transfer:

  • Go where the road takes you with an El Nido Airport rental car. Pick up a set of wheels from Hertz, Dollar or Thrifty and venture far and wide through El Nido and beyond.

  • Lock in the lowest price by booking your vehicle from El Nido Airport around four weeks before your trip.

Getting from El Nido Airport (ENI) to central El Nido

  • El Nido Airport is approximately 2 kilometres from central El Nido. The drive time takes around 5 minutes.

  • It takes around 15 minutes if you're travelling by public transport.

When to fly to El Nido Airport (ENI)

  • May is the busiest month for flights from Kota Kinabalu International Airport to El Nido Airport. To escape the crowds, visit El Nido in February.

  • The warmest month in El Nido is May, with the temperature ranging between 26ºC (79ºF) and 30ºC (86ºF). Lock in your flights from Kota Kinabalu International Airport to El Nido Airport in this month if this is the type of weather you like.

  • Search for cheap tickets from BKI to ENI in February if you want to travel in cooler conditions. Temperatures are at their lowest then, ranging between 25ºC (77ºF) and 29ºC (84ºF) on average.

Explore more of Philippines

  • Quezon City is just one of the many cities in Philippines waiting to be explored after you've experienced El Nido. Around 418 kilometres away to the north-east, top sights here include Pinky Spikes, Province and GEE’s SPOT GARDEN by Gerard.

  • Manila is another standout destination in Philippines and is around 418 kilometres north-east of El Nido. No trip is complete without seeing Rizal Park, National Museum of Fine Arts and Fort Santiago.

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