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Cheap flights from Manila to Kota Kinabalu from ₱2,995

This is the cheapest one-way flight price found by a Cheapflights user in the last 72 hours by searching for a flight departing on 3/22. Fares are subject to change and may not be available on all flights or dates of travel.
MNL — BKI
Mar 3 — Mar 101
1 adult
1 adult, Economy, 0 bags
Cheapflights Tip: The best prices from Manila Ninoy Aquino Intl to Kota Kinabalu are usually found in July or August, booked 90 days in advance, depart on a Tuesday or Thursday and return on a Monday

Cheap flight deals from Manila to Kota Kinabalu

Enter your travel dates to find the best prices.

Cheapest flights from Manila to Kota Kinabalu
Explore the most affordable flight options available from Manila to Kota Kinabalu. Find the lowest fares from popular airlines and budget airlines, with prices last updated on February 1, 2026.

Mon 8/1011:10 pm
MNL
-
BKI
Nonstop2h 10m
Philippines AirAsia
Wed 8/121:45 am
BKI
-
MNL
Nonstop2h 10m
Philippines AirAsia
Deal found 1/31₱5,990
Wed 7/111:10 pm
MNL
-
BKI
Nonstop2h 10m
Philippines AirAsia
Mon 7/61:45 am
BKI
-
MNL
Nonstop2h 10m
Philippines AirAsia
Deal found 1/31₱6,166
Mon 3/164:15 pm
MNL
-
BKI
Nonstop2h 15m
Philippines AirAsia
Mon 3/237:15 pm
BKI
-
MNL
Nonstop2h 00m
Philippines AirAsia
Deal found 1/30₱6,518
Tue 3/176:30 am
MNL
-
BKI
1 stop12h 30m
Scoot
Tue 3/248:00 pm
BKI
-
MNL
1 stop22h 30m
Scoot
Deal found 1/31₱9,455
Mon 5/116:55 am
MNL
-
BKI
1 stop12h 35m
Scoot
Fri 5/1510:00 pm
BKI
-
MNL
1 stop7h 50m
Scoot
Deal found 1/30₱9,689
Mon 3/167:30 pm
MNL
-
BKI
1 stop23h 30m
Multiple Airlines
Mon 3/237:15 pm
BKI
-
MNL
Nonstop2h 00m
Multiple Airlines
Deal found 1/30₱10,100
Sun 3/2911:10 pm
MNL
-
BKI
Nonstop2h 10m
Multiple Airlines
Tue 3/3112:15 pm
BKI
-
MNL
1 stop17h 35m
Multiple Airlines
Deal found 1/31₱10,512
Mon 5/1111:10 pm
MNL
-
BKI
Nonstop2h 10m
Multiple Airlines
Fri 5/1510:00 pm
BKI
-
MNL
1 stop7h 50m
Multiple Airlines
Deal found 1/30₱10,570
Thu 7/27:20 am
MNL
-
BKI
2 stops10h 05m
Multiple Airlines
Mon 7/61:45 am
BKI
-
MNL
Nonstop2h 10m
Multiple Airlines
Deal found 1/31₱10,688
Mon 3/167:30 pm
MNL
-
BKI
1 stop23h 30m
Scoot
Mon 3/238:00 pm
BKI
-
MNL
1 stop9h 30m
Scoot
Deal found 1/30₱11,040
Wed 7/18:10 am
MNL
-
BKI
1 stop10h 25m
Multiple Airlines
Mon 7/61:45 am
BKI
-
MNL
Nonstop2h 10m
Multiple Airlines
Deal found 1/31₱11,099

Find flight deals from Manila to Kota Kinabalu

Discover tips and strategies to find the most affordable flight options for your journey from Manila (MNL) to Kota Kinabalu (BKI). Learn about various techniques such as flexible date searches, comparing prices across and setting up price alerts. Use these methods to find the cheapest flights available for your travel needs. Data last updated February 1, 2026.

Round-trip from

₱6,166

One-way from

₱2,995

Popular in

January

Cheapest in

July

Average price

₱7,810

Good round-trip deal

₱5,989 or less

Good one-way deal

₱3,452 or less
Philippines AirAsia
  • Philippines AirAsia
  • 5/1-5/8
  • Nonstop
  • 4h 20m total
  • Manila to Kota Kinabalu
Search Deals
Philippines AirAsia
  • Philippines AirAsia
  • 3/22
  • Nonstop
  • 2h 15m total
  • Manila to Kota Kinabalu
Search Deals
Highest demand for flights based on searches. 18% potential increase in price (₱91,076 potential increase over avg. RT price).
Search Deals
Cheapest flight prices on average. 2% potential price decrease (₱9,812 potential savings vs. average RT price).
Search Deals
Average for round-trip flights in February 2026
Search Deals
Price to beat on a round-trip flight from Manila Ninoy Aquino Intl to Kota Kinabalu.
Search Deals
Price to beat on a one-way flight from Manila Ninoy Aquino Intl to Kota Kinabalu.
Search Deals

Cheapflights Fare Finder

 
Customize your flight search to find flights from Manila to Kota Kinabalu that fit within your specific budget. Explore options based on user searches and filter the results based on your desired price range. Find flights that match your budget for a cost-effective journey. Over the last 7 days, Cheapflights users made 411,093 searches. Data last updated February 1, 2026.
Use the filters below to find and compare flights from Manila to Kota Kinabalu that are best for you.

Fly from

Manila

Fly to

Kota Kinabalu

Route

Depart

Return

Price

ManilaKota Kinabalu

MNL - BKI

MNLBKI

Manila Ninoy Aquino Intl

Mon 3/16

4:15 pm-6:30 pm

Nonstop2h 15m

Kota Kinabalu

Mon 3/23

7:15 pm-9:15 pm

Nonstop2h 00m

₱6,518

ManilaKota Kinabalu

MNL - BKI

MNLBKI

Manila Ninoy Aquino Intl

Tue 3/17

6:30 am-7:00 pm

1 stop12h 30m

Kota Kinabalu

Tue 3/24

8:00 pm-6:30 pm

1 stop22h 30m

₱9,455

ManilaKota Kinabalu

MNL - BKI

MNLBKI

Manila Ninoy Aquino Intl

Mon 5/11

6:55 am-7:30 pm

1 stop12h 35m

Kota Kinabalu

Fri 5/15

10:00 pm-5:50 am

1 stop7h 50m

₱9,689

ManilaKota Kinabalu

MNL - BKI

MNLBKI

Manila Ninoy Aquino Intl

Mon 3/16

7:30 pm-7:00 pm

1 stop23h 30m

Kota Kinabalu

Mon 3/23

7:15 pm-9:15 pm

Nonstop2h 00m

₱10,100

ManilaKota Kinabalu

MNL - BKI

MNLBKI

Manila Ninoy Aquino Intl

Sun 3/29

11:10 pm-1:20 am

Nonstop2h 10m

Kota Kinabalu

Tue 3/31

12:15 pm-5:50 am

1 stop17h 35m

₱10,512

ManilaKota Kinabalu

MNL - BKI

MNLBKI

Manila Ninoy Aquino Intl

Mon 5/11

11:10 pm-1:20 am

Nonstop2h 10m

Kota Kinabalu

Fri 5/15

10:00 pm-5:50 am

1 stop7h 50m

₱10,570

ManilaKota Kinabalu

MNL - BKI

MNLBKI

Manila Ninoy Aquino Intl

Thu 7/2

7:20 am-4:55 pm

1 stop9h 35m

Kota Kinabalu

Mon 7/6

1:45 am-3:55 am

Nonstop2h 10m

₱10,570

ManilaKota Kinabalu

MNL - BKI

MNLBKI

Manila Ninoy Aquino Intl

Mon 3/16

7:30 pm-7:00 pm

1 stop23h 30m

Kota Kinabalu

Mon 3/23

8:00 pm-5:30 am

1 stop9h 30m

₱11,040

ManilaKota Kinabalu

MNL - BKI

MNLBKI

Manila Ninoy Aquino Intl

Wed 7/1

8:10 am-6:35 pm

1 stop10h 25m

Kota Kinabalu

Mon 7/6

1:45 am-3:55 am

Nonstop2h 10m

₱11,099

ManilaKota Kinabalu

MNL - BKI

MNLBKI

Manila Ninoy Aquino Intl

Wed 4/8

11:10 pm-1:20 am

Nonstop2h 10m

Kota Kinabalu

Sun 4/12

9:20 pm-8:55 pm

1 stop23h 35m

₱11,921

Flights are sorted by cheapest round-trip flights first.

Deals found on 1/30

Showing 1-10 of 19 results
1
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Best time to book a flight from Manila to Kota Kinabalu

Have a flexible travel schedule? Discover the best time to fly to Kota Kinabalu from Manila with our price prediction graph.
Estimated round-trip price
Rates are based on past data. Find the cheapest month and day to book your flight based on your travel requirements, then search for cheap deals.

Cheapflights Insights

Everything you need to know about your flight from Manila to Kota Kinabalu

How far ahead should I book a flight from Manila to Kota Kinabalu?

Use this chart to determine the optimal time to book a round-trip flight from Manila to Kota Kinabalu. Price data was last updated on January 30, 2026.

The price you pay for your flight from Manila to Kota Kinabalu may vary depending on when you book. For the best chance of a lower fare, look to book 89 days in advance of your trip. Fares are likely to increase a fortnight or so before your departure date.

What is the cheapest month to book a flight from Manila to Kota Kinabalu?

Currently, September is the cheapest month in which you can book a flight from Manila to Kota Kinabalu (average of ₱4,052). Flying from Manila to Kota Kinabalu in December is currently the most expensive (average of ₱6,342). There are several factors that can impact the price of a flight, so comparing airlines, departure airports and flight times can provide users with more options.

What is the cheapest time of day to fly from MNL to BKI?

Find hourly flight availability from Manila to Kota Kinabalu. Discover flight options and departure times throughout the day, allowing you to choose a departure time that suits your schedule. Data last updated February 1, 2026.

When flying from Manila to Kota Kinabalu, the time of day you decide to fly out makes little to no difference towards the overall price you’ll pay on tickets.

Reviews of airlines servicing Kota Kinabalu

Get insights into the airlines that provide service to Kota Kinabalu. Read reviews, discover amenities, and learn about the overall travel experience offered by airlines. Use this information to make informed decisions when choosing an airline for your flight to Kota Kinabalu. Reviews last updated February 1, 2026.
Read reviews from past customers who have flown Philippines AirAsia from Manila to Kota Kinabalu. Users can see the overall rating for each airline as well as how each is rated in terms of entertainment options, comfort, food, crew/service, and boarding process.
Philippines AirAsia
6.7
Okay
120 reviews
Check prices

Overall

6.7

Crew

7.5

Entertainment

5.6

Boarding

6.7

Comfort

6.6

Food

6.4

Reviews

1 / 4
6.0
Good

Edward,Feb 2024

DVO - MNL

Ontime. But we hated that we paid to upgrade our weight of checked bags and carryon but your staff wanted to recheck and re weight it 2 times at 2 different points
Philippines AirAsia
6.7
Okay
120 reviews
Philippines AirAsia
6.7
Okay
120 reviews
Check prices

Overall

6.7

Crew

7.5

Entertainment

5.6

Boarding

6.7

Comfort

6.6

Food

6.4

Reviews

1 / 4
6.0
Good

Edward,Feb 2024

DVO - MNL

Ontime. But we hated that we paid to upgrade our weight of checked bags and carryon but your staff wanted to recheck and re weight it 2 times at 2 different points

Related info for your journey

Find useful and relevant information for your journey from Manila to Kota Kinabalu. Access travel guides, tips, and recommendations to enhance your travel experience. Get information about local attractions, weather, transportation options, and more.

  • How popular is this Manila to Kota Kinabalu flight route?

    This flight path from Manila Ninoy Aquino Intl to Kota Kinabalu was viewed by 1,122 users in the past month. Keep an eye out for changes in search interest prior to high and low season.

  • How long is the flight from Manila to Kota Kinabalu?

    There are many flights that can get you from Manila to Kota Kinabalu in 2h 15m. Fly via Philippines AirAsia or Scoot to get the fastest option. The distance between Manila and Kota Kinabalu is about 1096 km. Both multi-stop and direct flights can be found to your destination and back.

  • What is the cheapest airline to fly from Manila to Kota Kinabalu round-trip?

    Flying on Philippines AirAsia is currently your cheapest option to Kota Kinabalu, with prices starting at ₱4,377. You may be able to fly from Manila to Kota Kinabalu for 34% less than the average price by searching for this airline.

  • What are the cheapest flights from Manila to Kota Kinabalu?

    On average you can expect to pay ₱6,644 for a flight from Manila to Kota Kinabalu. The cheapest flight overall is ₱3,361 while the most popular route, (Manila Ninoy Aquino Intl - Kota Kinabalu) is currently priced at ₱6,401.

  • Can I find deals for flights from Manila to Kota Kinabalu that include hotel bookings?

    Yes. In addition to deals on Manila to Kota Kinabalu flights, Cheapflights offers vacation packages that include both flights and hotel.

  • How can I find direct flights from Manila to Kota Kinabalu?

    After entering your origin and destination, apply the non-stop filter on the search result page to find direct flights from Manila to Kota Kinabalu.

  • Can I find deals for business class flights from Manila to Kota Kinabalu?

    Yes. Cheapflights offers flight deals from Manila to Kota Kinabalu by cabin class. In addition to browsing deals, you can also filter by cabin class on the search results page after making a search.

  • What is the cheapest month to book a flight from Manila to Kota Kinabalu?

    Currently, September is the cheapest month in which you can book a flight from Manila to Kota Kinabalu (average of ₱4,052). Flying from Manila to Kota Kinabalu in December is currently the most expensive (average of ₱6,342). There are several factors that can impact the price of a flight, so comparing airlines, departure airports and flight times can provide users with more options.

See more FAQs

Browse thousands of different options on Cheapflights for your next trip

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Fly from Manila to Kota Kinabalu on these airlines

Choose from the following airlines for your flight from Manila to Kota Kinabalu. Flights are based on user searches made on Cheapflights and were last updated on February 1, 2026.
Philippines AirAsia flights from Manila Ninoy Aquino Intl to Kota Kinabalu

Top airline flying from Manila to Kota Kinabalu

Discover the top airline that operate flights from Manila to Kota Kinabalu. Compare their services, reliability, and customer satisfaction ratings to choose the airline that best suits your travel preferences and needs. Over the last 7 days, Cheapflights users made 411,093 searches. Data last updated February 1, 2026.
AirlineCheapestAverageFlexibilityOn-time
Philippines AirAsiaCheapest₱4,377Average₱6,272FlexibilityNo cancel feeOn-time53%
Search Philippines AirAsia flights

Fly with Cheapflights

Find the best flight deals on Cheapflights, where travelers can enjoy low prices and a wide availability of flights to their desired destinations.

How does Cheapflights help users find flights from Manila to Kota Kinabalu?

Cheapflights makes it easy to find Manila to Kota Kinabalu flights by helping our users search from 900+ travel sites for deals. We also provide you with filters for cabin, price, airline, airports, number of stops, and many more to narrow down that perfect flight.

Why should you use Cheapflights to find cheap flight tickets from Manila to Kota Kinabalu?

By finding flights from multiple airlines and providers at completely no cost, Cheapflights helps millions of users like you annually find the best flights to Kota Kinabalu from Manila.

Can Cheapflights find flights from Manila to Kota Kinabalu with no change fees?

Need flexible booking options for your flight to Kota Kinabalu from Manila? Don’t worry, Cheapflights have you covered. Use our search filter to only show flights with no change fees.

Can Cheapflights notify me if prices for flights from Manila to Kota Kinabalu become cheaper?

Yes, Cheapflights offers price alerts on Manila to Kota Kinabalu flights so you can book your travel at the perfect time. Price Alerts can be enabled by clicking the bell icon next to the flight deals above and providing your email address where you want to receive the alerts.

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