Cheap flights from Manila to Kota Kinabalu from ₱2,897
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 1/28. Fares are subject to change and may not be available on all flights or dates of travel.
MNL — BKI
Dec 2 — Dec 91
Round-trip
1 adult
Economy
Round-trip
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 71 days in advance, depart on a Tuesday or Thursday and return on a Tuesday
Cheap 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 November 2, 2025.
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 November 2, 2025.
Fri 11/214:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Sun 11/236:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 11/1₱5,794
Mon 12/14:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Wed 12/316:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 10/31₱6,083
Mon 11/174:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Fri 11/216:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 11/1₱6,199
Wed 11/264:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Sun 11/306:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 10/30₱6,547
Fri 11/144:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Mon 11/176:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 10/31₱7,068
Wed 12/174:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Wed 12/246:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 11/1₱8,517
Fri 11/219:30 pmMNL - BKI
1 stop11h 10mMultiple Airlines
Sun 11/236:55 pmBKI - MNL
Nonstop2h 00mMultiple Airlines
Deal found 11/1₱9,791
Best flights from Manila to Kota Kinabalu
Discover carefully curated flight deals from Manila to Kota Kinabalu that have cost, travel time, and layovers in mind to ensure you get the best travel experience. Data last updated November 2, 2025.
Fri 11/214:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Sun 11/236:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 11/1₱5,794
Fri 11/214:15 pmMNL - BKI
Nonstop2h 15mMultiple Airlines
Sun 11/231:05 pmBKI - MNL
2 stops11h 40mMultiple Airlines
Deal found 10/31₱11,472
Sun 1/184:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Wed 1/216:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 10/31₱5,910
Wed 1/214:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Sun 1/256:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 10/31₱6,083
Wed 1/214:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Fri 1/306:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 11/1₱6,083
Mon 11/174:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Fri 11/216:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 11/1₱6,199
Wed 11/264:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Sun 11/306:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 10/30₱6,547
Fri 11/144:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Mon 11/176:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 10/31₱7,068
Tue 1/1310:25 amMNL - BKI
2 stops12h 35mMultiple Airlines
Fri 1/166:55 pmBKI - MNL
Nonstop2h 00mMultiple Airlines
Deal found 11/1₱12,167
Wed 12/174:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Wed 12/246:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 11/1₱8,517
Direct flights from Manila to Kota Kinabalu
Explore non-stop flight options from Manila to Kota Kinabalu based on user searches, and compare prices and availability for your desired travel dates. Data last updated November 2, 2025.
Fri 11/214:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Sun 11/236:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 11/1₱5,794
Wed 1/214:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Sun 1/256:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 10/31₱6,083
Mon 11/174:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Fri 11/216:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 11/1₱6,199
Wed 11/264:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Sun 11/306:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 10/30₱6,547
Fri 11/144:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Mon 11/176:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 10/31₱7,068
Wed 12/174:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Wed 12/246:55 pmBKI - MNL
Nonstop2h 00mPhilippines AirAsia
Deal found 11/1₱8,517
Last-minute flights from Manila to Kota Kinabalu
Discover last-minute flight deals from Manila to Kota Kinabalu. Data last updated November 2, 2025 and is based on user searches.
Fri 11/79:40 pmMNL - BKI
1 stop22h 45mRoyal Brunei Airlines
Fri 11/148:50 amBKI - MNL
1 stop11h 55mRoyal Brunei Airlines
Deal found 11/1₱39,224
Fri 11/79:40 pmMNL - BKI
1 stop18h 30mMultiple Airlines
Fri 11/147:40 amBKI - MNL
2 stops10h 50mMultiple Airlines
Deal found 11/1₱58,459
Wed 11/124:15 pmMNL - BKI
Nonstop2h 15mMultiple Airlines
Sat 11/158:00 amBKI - MNL
1 stop16h 35mMultiple Airlines
Deal found 11/1₱10,834
One-way flights from Manila to Kota Kinabalu
Search for one-way flight options from Manila to Kota Kinabalu. Find affordable one-way fares based on user searches. Data last updated November 2, 2025.
Wed 1/284:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Deal found 10/31₱2,897
Wed 2/184:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Deal found 10/31₱3,071
Fri 1/234:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Deal found 10/31₱3,129
Mon 12/84:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Deal found 11/1₱3,244
Fri 11/284:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Deal found 10/31₱3,766
Fri 1/24:15 pmMNL - BKI
Nonstop2h 15mPhilippines AirAsia
Deal found 11/1₱4,751
Fri 1/237:55 pmMNL - BKI
1 stop14h 35mMultiple Airlines
Deal found 10/31₱6,026
Wed 1/287:55 pmMNL - BKI
1 stop12h 45mMultiple Airlines
Deal found 10/31₱6,141
Fri 1/231:10 amMNL - BKI
1 stop9h 20mAirAsia
Deal found 10/31₱6,431
Fri 1/302:05 amMNL - BKI
1 stop22h 25mHK Express
Deal found 10/31₱6,663
Sat 1/317:30 pmMNL - BKI
1 stop23h 30mScoot
Deal found 10/31₱6,721
Sat 1/172:05 amMNL - BKI
1 stop22h 25mHK Express
Deal found 10/31₱6,779
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 November 2, 2025.
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
Fri 11/21
4:15 pm-6:30 pm
Nonstop2h 15m
Kota Kinabalu
Sun 11/23
6:55 pm-8:55 pm
Nonstop2h 00m
₱5,794
ManilaKota Kinabalu
MNL - BKI
MNLBKI
Manila Ninoy Aquino Intl
Sun 1/18
4:15 pm-6:30 pm
Nonstop2h 15m
Kota Kinabalu
Wed 1/21
6:55 pm-8:55 pm
Nonstop2h 00m
₱5,910
ManilaKota Kinabalu
MNL - BKI
MNLBKI
Manila Ninoy Aquino Intl
Wed 1/21
4:15 pm-6:30 pm
Nonstop2h 15m
Kota Kinabalu
Sun 1/25
6:55 pm-8:55 pm
Nonstop2h 00m
₱6,083
ManilaKota Kinabalu
MNL - BKI
MNLBKI
Manila Ninoy Aquino Intl
Wed 1/21
4:15 pm-6:30 pm
Nonstop2h 15m
Kota Kinabalu
Fri 1/30
6:55 pm-8:55 pm
Nonstop2h 00m
₱6,083
ManilaKota Kinabalu
MNL - BKI
MNLBKI
Manila Ninoy Aquino Intl
Mon 11/17
4:15 pm-6:30 pm
Nonstop2h 15m
Kota Kinabalu
Fri 11/21
6:55 pm-8:55 pm
Nonstop2h 00m
₱6,199
ManilaKota Kinabalu
MNL - BKI
MNLBKI
Manila Ninoy Aquino Intl
Wed 11/26
4:15 pm-6:30 pm
Nonstop2h 15m
Kota Kinabalu
Sun 11/30
6:55 pm-8:55 pm
Nonstop2h 00m
₱6,547
ManilaKota Kinabalu
MNL - BKI
MNLBKI
Manila Ninoy Aquino Intl
Fri 11/14
4:15 pm-6:30 pm
Nonstop2h 15m
Kota Kinabalu
Mon 11/17
6:55 pm-8:55 pm
Nonstop2h 00m
₱7,068
ManilaKota Kinabalu
MNL - BKI
MNLBKI
Manila Ninoy Aquino Intl
Wed 12/17
4:15 pm-6:30 pm
Nonstop2h 15m
Kota Kinabalu
Wed 12/24
6:55 pm-8:55 pm
Nonstop2h 00m
₱8,517
ManilaKota Kinabalu
MNL - BKI
MNLBKI
Manila Ninoy Aquino Intl
Fri 11/21
4:15 pm-6:30 pm
Nonstop2h 15m
Kota Kinabalu
Sun 11/23
1:05 pm-12:45 am
2 stops11h 40m
₱11,472
ManilaKota Kinabalu
MNL - BKI
MNLBKI
Manila Ninoy Aquino Intl
Tue 1/13
10:25 am-11:00 pm
2 stops12h 35m
Kota Kinabalu
Fri 1/16
6:55 pm-8:55 pm
Nonstop2h 00m
₱12,167
Flights are sorted by cheapest round-trip flights first.
Deals found on 10/31
Showing 1-10 of 22 results
1
2
3
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
Prices
Delays
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 October 31, 2025.
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 71 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 ₱3,998). Flying from Manila to Kota Kinabalu in March is currently the most expensive (average of ₱5,446). 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 November 2, 2025.
It’s typically best to fly out from Manila to Kota Kinabalu in the evening. Doing so could potentially save you 52% on the flight price compared to flying at noon, which is usually more expensive.
How often are flights from Manila to Kota Kinabalu delayed?
About 28% of weekly flights between Manila and Kota Kinabalu have experienced delays in the past year, with the average delay time being 156 minutes.
What is the most punctual flight time for Manila to Kota Kinabalu flights?
Historically, flights departing at night are less likely to be delayed, whereas flights leaving in the early afternoon tend to experience delays more often.
What day of the week experiences the fewest flight delays on this route?
Tuesday tends to have the lowest number of delays on this route, whereas Sunday has historically faced a higher average of delays compared to other days of the week.
Which airline has the best punctuality record on Manila to Kota Kinabalu flights?
Over the last year, AirAsia have had the lowest number of delays on this route, with just 28% of flights being delayed.
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 November 2, 2025.
Read reviews from past customers who have flown Malaysia Airlines, Scoot, and 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.
I have a good experience and got good hospitality from cabin crew thank you.
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 1,329 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 to get the fastest option. The distance between Manila and Kota Kinabalu is about 1096 km. Generally, flights for this route are direct.
What are the cheapest airlines flying from Manila to Kota Kinabalu round-trip?
Flying on Philippines AirAsia is currently your cheapest option to Kota Kinabalu, with prices starting at ₱4,346. Additional round-trip tickets that might be worth considering are offered by Scoot and Malaysia Airlines, with the lowest prices starting at ₱8,426 and ₱18,152, respectively. You may be able to fly from Manila to Kota Kinabalu for 32% less than the average price by searching for these airlines.
What are the cheapest flights from Manila to Kota Kinabalu?
On average you can expect to pay ₱5,131 for a flight from Manila to Kota Kinabalu. The cheapest flight overall is ₱3,059 while the most popular route, (Manila Ninoy Aquino Intl - Kota Kinabalu) is currently priced at ₱5,910.
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 ₱3,998). Flying from Manila to Kota Kinabalu in March is currently the most expensive (average of ₱5,446). 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.
Browse thousands of different options on Cheapflights for your next trip
Toggle through the tabs below to find thousands of options on Cheapflights for your next trip.
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 November 2, 2025.
Top 3 airlines flying from Manila to Kota Kinabalu
Discover the top 3 airlines 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 November 2, 2025.
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.
100% Free
Cheapflights is completely free to use, so you can start saving the moment you arrive.
Book with Flexibility
Our users can plan ahead with confidence and find flights with no change fees
Travel Smart
Millions of people come to us for their flight needs every year. We help make travel planning easy by providing useful insights and data-driven graphs that can inform your decisions.
We value your privacy
Cheapflights and its partners wish to use cookies or similar technologies to store and/or access information on and about your device and process personal data such as your IP address, device identifiers etc., in order to improve your experience on the site, to analyze navigation, to offer and measure personalized advertising, and to facilitate sharing on social networks. We also allow the use of third-party cookies (including those from our advertising partners) on our sites.
By clicking 'Accept', you consent to your data being processed by 0 vendors on this web site for the purposes described in this notice. You can review the vendors and their individual processing purposes on the .
To review individual processing purposes and cookie categories, please click ’Select individual purposes’. You can review your choices and withdraw your consent at any time by clicking the ’Privacy Preferences’ link in the page side navigation.