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Cheap flights from Cebu to Kota Kinabalu from ₱4,759

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 3/12. Fares are subject to change and may not be available on all flights or dates of travel.
CEB — BKI
Mar 23 — Mar 301
1 adult
1 adult, Economy, 0 bags

Cheap flight deals from Cebu to Kota Kinabalu

Enter your travel dates to find the best prices.

Cheapest flights from Cebu to Kota Kinabalu
Explore the most affordable flight options available from Cebu to Kota Kinabalu. Find the lowest fares from popular airlines and budget airlines, with prices last updated on February 21, 2026.

Sun 6/217:20 pm
CEB
-
BKI
1 stop29h 10m
Cathay Pacific
Tue 6/231:15 am
BKI
-
CEB
1 stop16h 55m
Cathay Pacific
Deal found 2/19₱23,213
Sun 6/217:05 am
CEB
-
BKI
2 stops32h 30m
Philippine Airlines
Wed 6/245:20 am
BKI
-
CEB
2 stops25h 05m
Philippine Airlines
Deal found 2/19₱28,436
Sun 6/212:30 pm
CEB
-
BKI
1 stop7h 35m
Malaysia Airlines
Wed 6/245:20 am
BKI
-
CEB
2 stops12h 50m
Malaysia Airlines
Deal found 2/19₱51,243

Find flight deals from Cebu to Kota Kinabalu

Keep the following information in mind while searching for Cebu to Kota Kinabalu flight deals. Data was last updated February 21, 2026.

Round-trip from

₱23,213

One-way from

₱4,759

Popular in

January

Cheapest in

February

Average price

₱8,763
Cathay Pacific
  • Cathay Pacific
  • 6/21-6/23
  • 2 total stops
  • 46h 05m total
  • Cebu to Kota Kinabalu
Search Deals
Philippines AirAsia
  • Philippines AirAsia
  • 3/11
  • 1 total stop
  • 11h 55m total
  • Cebu to Kota Kinabalu
Search Deals
Highest demand for flights based on searches. 13% potential increase in price (₱122,188 potential increase over avg. RT price).
Search Deals
Cheapest flight prices on average. 10% potential price decrease (₱72,338 potential savings vs. average RT price).
Search Deals
Average for round-trip flights in February 2026
Search Deals

Cheapflights Fare Finder

 
Customize your flight search to find flights from Cebu 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 21, 2026.
Use the filters below to find and compare flights from Cebu to Kota Kinabalu that are best for you.

Fly from

Cebu

Fly to

Kota Kinabalu

Route

Depart

Return

Price

Cebu CityKota Kinabalu

CEB - BKI

CEBBKI

Cebu City Mactan Intl

Sun 6/21

7:20 pm-12:30 am

1 stop29h 10m

Kota Kinabalu

Tue 6/23

1:15 am-6:10 pm

1 stop16h 55m

₱23,213

Cebu CityKota Kinabalu

CEB - BKI

CEBBKI

Cebu City Mactan Intl

Sun 6/21

7:05 am-3:35 pm

2 stops32h 30m

Kota Kinabalu

Wed 6/24

5:20 am-6:25 am

2 stops25h 05m

₱28,436

Cebu CityKota Kinabalu

CEB - BKI

CEBBKI

Cebu City Mactan Intl

Sun 6/21

2:30 pm-10:05 pm

1 stop7h 35m

Kota Kinabalu

Wed 6/24

5:20 am-6:10 pm

2 stops12h 50m

₱51,243

Cebu CityKota Kinabalu

CEB - BKI

CEBBKI

Cebu City Mactan Intl

Thu 3/12

11:45 pm-6:30 pm

1 stop18h 45m

₱4,759

Cebu CityKota Kinabalu

CEB - BKI

CEBBKI

Cebu City Mactan Intl

Sun 3/8

2:20 am-6:30 pm

1 stop16h 10m

₱4,875

Cebu CityKota Kinabalu

CEB - BKI

CEBBKI

Cebu City Mactan Intl

Sun 3/8

6:35 am-6:30 pm

1 stop11h 55m

₱4,991

Cebu CityKota Kinabalu

CEB - BKI

CEBBKI

Cebu City Mactan Intl

Tue 3/24

10:50 pm-6:30 pm

1 stop19h 40m

₱5,455

Cebu CityKota Kinabalu

CEB - BKI

CEBBKI

Cebu City Mactan Intl

Thu 3/5

2:20 am-6:30 pm

1 stop16h 10m

₱6,151

Cebu CityKota Kinabalu

CEB - BKI

CEBBKI

Cebu City Mactan Intl

Thu 2/26

2:30 pm-8:15 am

2 stops41h 45m

₱6,964

Cebu CityKota Kinabalu

CEB - BKI

CEBBKI

Cebu City Mactan Intl

Sun 3/1

2:30 pm-1:55 pm

2 stops23h 25m

₱7,022

Flights are sorted by cheapest round-trip flights first.

Deals found on 2/19

Showing 1-10 of 14 results
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Best time to book a flight from Cebu to Kota Kinabalu

Have a flexible travel schedule? Discover the best time to fly to Kota Kinabalu from Cebu 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 Cebu to Kota Kinabalu
No data available for this route at this time. Please check back soon.

Related info for your journey

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

  • What airport do you fly into for flights to Kota Kinabalu from Cebu?

    Most people fly into Kota Kinabalu (BKI) if they book a flight to Kota Kinabalu from Cebu. Kota Kinabalu is conveniently located just 5.8 km from Kota Kinabalu’s city center.

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

    For as low as ₱23,213, Cathay Pacific can have you in Kota Kinabalu from Cebu in 29h 10m. There are 999 km between Cebu and Kota Kinabalu. Both multi-stop and direct flights can be found to your destination and back.

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

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

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

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

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

    Yes. Cheapflights offers flight deals from Cebu 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.

See more FAQs

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Alternative routes for Cebu to Kota Kinabalu

See prices for flight routes from nearby airports that may be better suited for you.
Manila to Kota Kinabalu flights
Davao City to Kota Kinabalu flights
Zamboanga City to Kota Kinabalu flights

Top airline flying from Cebu to Kota Kinabalu

Discover the top airline that operate flights from Cebu 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 21, 2026.
AirlineCheapestAverageFlexibilityOn-time
Philippines AirAsiaCheapest₱8,253Average₱10,885FlexibilityNo cancel feeOn-time53%
Search Philippines AirAsia flights

Fly with Cheapflights

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

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

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

Need flexible booking options for your flight to Kota Kinabalu from Cebu? 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 Cebu to Kota Kinabalu become cheaper?

Of course! You can now track prices for flights from Cebu to Kota Kinabalu and get an alert from Cheapflights when they change. Have a valid email address ready and click the bell icon next to the flight deals above to set up your price alerts.

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