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Cheap flights from San Diego to San Juan from $129

This is the cheapest one-way flight price found by a momondo user in the last 72 hours by searching for a flight from San Diego to San Juan departing on 2/26. Fares may change, and may not be available for all flights or travel dates. Click the price to refresh the search for this deal.
1 adult
0 bags

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Find the cheapest flights from San Diego to San Juan

Cheap round-trip flights

Enter your travel dates to find the best prices.
Southwest Logo
6:35 pm - 9:55 am
SAN
-
SJU
11h 20m2 stops
Southwest Logo
5:40 am - 1:20 pm
SJU
-
SAN
11h 40m2 stops
$344Southwest
Sat, Feb 21 - Wed, Feb 25
Frontier Logo
6:25 am - 6:34 am
SAN
-
SJU
20h 09m1 stop
Frontier Logo
6:30 am - 7:37 pm
SJU
-
SAN
41h 07m2 stops
$350Frontier
Thu, Jan 1 - Sun, Jan 11
Frontier Logo
6:25 am - 6:34 am
SAN
-
SJU
20h 09m1 stop
Frontier Logo
7:05 pm - 11:36 pm
SJU
-
SAN
32h 31m1 stop
$352Frontier
Thu, Jan 1 - Sun, Jan 11
Multiple Airlines Logo
6:54 am - 12:27 pm
SAN
-
SJU
25h 33m1 stop
Multiple Airlines Logo
6:00 am - 12:24 am
SJU
-
SAN
22h 24m2 stops
$355Multiple Airlines
Thu, Jan 15 - Sun, Jan 18
Multiple Airlines Logo
11:21 am - 11:37 am
SAN
-
SJU
20h 16m1 stop
Multiple Airlines Logo
7:04 pm - 10:26 am
SJU
-
SAN
43h 22m2 stops
$356Multiple Airlines
Sat, Feb 14 - Thu, Feb 19
United Airlines Logo
6:15 am - 10:22 pm
SAN
-
SJU
12h 07m2 stops
United Airlines Logo
8:35 am - 5:28 pm
SJU
-
SAN
12h 53m2 stops
$357United Airlines
Sat, Jan 17 - Tue, Jan 27
Multiple Airlines Logo
6:25 am - 12:33 am
SAN
-
SJU
14h 08m1 stop
Multiple Airlines Logo
7:10 am - 11:16 pm
SJU
-
SAN
20h 06m2 stops
$359Multiple Airlines
Wed, Dec 31 - Sat, Jan 10
American Airlines Logo
6:35 am - 11:44 pm
SAN
-
SJU
13h 09m1 stop
American Airlines Logo
8:30 am - 4:13 pm
SJU
-
SAN
11h 43m2 stops
$361American Airlines
Fri, Feb 20 - Tue, Feb 24
JetBlue Logo
9:30 pm - 3:30 pm
SAN
-
SJU
14h 00m1 stop
JetBlue Logo
5:15 am - 11:28 am
SJU
-
SAN
34h 13m1 stop
$366JetBlue
Wed, Feb 11 - Mon, Feb 16
Southwest Logo
7:45 pm - 11:20 am
SAN
-
SJU
11h 35m2 stops
Southwest Logo
5:40 am - 2:40 pm
SJU
-
SAN
13h 00m2 stops
$367Southwest
Sat, Feb 7 - Wed, Feb 11

Southwest flights from San Diego to San Juan Luis Munoz Marin Intl Airport

Our best Southwest deals on San Diego to San Juan Luis Munoz Marin Intl Airport flight tickets
Southwest
Feb 21
SAN6:35 pmSan Diego
11h 20m
2 stops
SJU9:55 amSan Juan Luis Munoz Marin Intl
Feb 25
SJU5:40 amSan Juan Luis Munoz Marin Intl
11h 40m
2 stops
SAN1:20 pmSan Diego
$344
Find similar
Southwest
Feb 7
SAN7:45 pmSan Diego
11h 35m
2 stops
SJU11:20 amSan Juan Luis Munoz Marin Intl
Feb 11
SJU5:40 amSan Juan Luis Munoz Marin Intl
13h 00m
2 stops
SAN2:40 pmSan Diego
$367
Find similar
Southwest
Jan 9
SAN7:55 pmSan Diego
11h 20m
2 stops
SJU11:15 amSan Juan Luis Munoz Marin Intl
Jan 13
SJU5:40 amSan Juan Luis Munoz Marin Intl
11h 40m
2 stops
SAN1:20 pmSan Diego
$411
Find similar

American Airlines flights from San Diego to San Juan Luis Munoz Marin Intl Airport

Our best American Airlines deals on San Diego to San Juan Luis Munoz Marin Intl Airport flight tickets
American Airlines
Feb 20
SAN6:35 amSan Diego
13h 09m
1 stop
SJU11:44 pmSan Juan Luis Munoz Marin Intl
Feb 24
SJU8:30 amSan Juan Luis Munoz Marin Intl
11h 43m
2 stops
SAN4:13 pmSan Diego
$361
Find similar
American Airlines
Feb 10
SAN8:25 amSan Diego
10h 01m
1 stop
SJU10:26 pmSan Juan Luis Munoz Marin Intl
Feb 16
SJU6:00 amSan Juan Luis Munoz Marin Intl
16h 50m
1 stop
SAN6:50 pmSan Diego
$368
Find similar
American Airlines
Jan 17
SAN6:20 amSan Diego
12h 06m
1 stop
SJU10:26 pmSan Juan Luis Munoz Marin Intl
Jan 26
SJU7:07 amSan Juan Luis Munoz Marin Intl
19h 43m
1 stop
SAN10:50 pmSan Diego
$401
Find similar

momondo Fare Finder

 
Customize your flight search to find flights from San Diego to San Juan Luis Munoz Marin Intl Airport 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, momondo users made 832,500 searches. Data last updated December 11, 2025.
Use the filters below to find and compare flights from San Diego to San Juan Luis Munoz Marin Intl Airport that are best for you.

Fly from

Fly to

Route

Depart

Return

Price

San DiegoSan Juan

SAN - SJU

SANSJU

San Diego

Sat 2/21

6:35 pm-9:55 am

2 stops11h 20m

San Juan Luis Munoz Marin Intl

Wed 2/25

5:40 am-1:20 pm

2 stops11h 40m

$344

San DiegoSan Juan

SAN - SJU

SANSJU

San Diego

Thu 1/1

6:25 am-6:34 am

1 stop20h 09m

San Juan Luis Munoz Marin Intl

Sun 1/11

6:30 am-7:37 pm

2 stops41h 07m

$350

San DiegoSan Juan

SAN - SJU

SANSJU

San Diego

Thu 1/1

6:25 am-6:34 am

1 stop20h 09m

San Juan Luis Munoz Marin Intl

Sun 1/11

7:05 pm-11:36 pm

1 stop32h 31m

$352

San DiegoSan Juan

SAN - SJU

SANSJU

San Diego

Thu 1/15

6:54 am-12:27 pm

1 stop25h 33m

San Juan Luis Munoz Marin Intl

Sun 1/18

6:00 am-12:24 am

2 stops22h 24m

$355

San DiegoSan Juan

SAN - SJU

SANSJU

San Diego

Sat 2/14

11:21 am-11:37 am

1 stop20h 16m

San Juan Luis Munoz Marin Intl

Thu 2/19

7:04 pm-10:26 am

2 stops43h 22m

$356

San DiegoSan Juan

SAN - SJU

SANSJU

San Diego

Sat 1/17

6:15 am-10:22 pm

2 stops12h 07m

San Juan Luis Munoz Marin Intl

Tue 1/27

8:35 am-5:28 pm

2 stops12h 53m

$357

San DiegoSan Juan

SAN - SJU

SANSJU

San Diego

Wed 12/31

6:25 am-12:33 am

1 stop14h 08m

San Juan Luis Munoz Marin Intl

Sat 1/10

7:10 am-11:16 pm

2 stops20h 06m

$359

San DiegoSan Juan

SAN - SJU

SANSJU

San Diego

Fri 2/20

6:35 am-11:44 pm

1 stop13h 09m

San Juan Luis Munoz Marin Intl

Tue 2/24

8:30 am-4:13 pm

2 stops11h 43m

$361

San DiegoSan Juan

SAN - SJU

SANSJU

San Diego

Wed 2/11

9:30 pm-3:30 pm

1 stop14h 00m

San Juan Luis Munoz Marin Intl

Mon 2/16

5:15 am-11:28 am

1 stop34h 13m

$366

San DiegoSan Juan

SAN - SJU

SANSJU

San Diego

Sat 2/7

7:45 pm-11:20 am

2 stops11h 35m

San Juan Luis Munoz Marin Intl

Wed 2/11

5:40 am-2:40 pm

2 stops13h 00m

$367

Flights are sorted by cheapest round-trip flights first.

Showing 1-10 of 20 resultsSorted by cheapest first
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See travel insights to San Juan from

How to get the cheapest flight ticket from San Diego to San Juan Luis Munoz Marin Intl Airport

Look no further. We've gone through all the searches for this route on momondo so you have the important information and insights to find the cheapest flight ticket for your trip

What is the cheapest month to fly to San Juan Luis Munoz Marin Intl Airport?

If you aren’t able to travel to San Juan Luis Munoz Marin Intl Airport during the month of January, then flying in October is also cheap. Prices for this month can be found on momondo for an average of $441.

What is the cheapest day to depart on your flight to San Juan Luis Munoz Marin Intl Airport?

On average, the least expensive day to fly to San Juan Luis Munoz Marin Intl Airport from San Diego is on a Saturday. momondo users have found tickets for Saturday departures for as low as $504. However, this price may fluctuate depending on the airline, the season, and holidays. On the other hand, Sunday is the most expensive day to depart from San Diego because it is more convenient for both business and leisure travelers. As a result, prices tend to be around $571.

What is the cheapest time of day to depart on your flight to San Juan Luis Munoz Marin Intl Airport?

The cheapest time of day to fly to San Juan Luis Munoz Marin Intl Airport is at noon when flights can be purchased for as low as $485. Flights in the afternoon are often more expensive with an average ticket price of $569.

How far in advance should I book a flight to San Juan Luis Munoz Marin Intl Airport?

You are more likely to see cheaper flights to San Juan Luis Munoz Marin Intl Airport from San Diego when booking weeks ahead of your departure date. In general, you can expect to find flights to San Juan Luis Munoz Marin Intl Airport for around $520 when searching weeks out. However, flight prices might be lower outside of this timeframe. For example, people recently found flights to San Juan Luis Munoz Marin Intl Airport from San Diego for as low as $432 on momondo.

Can stopping save me money on San Diego to San Juan Luis Munoz Marin Intl Airport flights?

You could potentially save up to 29% on your flight if you consider stops on a San Diego to San Juan Luis Munoz Marin Intl Airport flight.

How have San Diego to San Juan Luis Munoz Marin Intl Airport flight prices changed over time?

As of December 2025, prices for San Diego to San Juan Luis Munoz Marin Intl Airport flights are approximately 38% more expensive when compared to flights at the same time last year.

When to book flights from San Diego to San Juan Luis Munoz Marin Intl Airport

Are you open to changing your travel dates? Check out the ideal times to fly from San Diego to San Juan Luis Munoz Marin Intl Airport according to our flight data. Find out which month and days have the cheapest flights.
Estimated round-trip price

Cheap San Diego to San Juan Luis Munoz Marin Intl Airport (SAN to SJU) flight deals and tips

Find info about flight duration, direct flights, and airports for your flight from San Diego to San Juan Luis Munoz Marin Intl Airport

Fastest flight time

8h 48m

Direct flights

None
The fastest flight from San Diego to San Juan Luis Munoz Marin Intl Airport takes 8h 48m
There are no direct flights from San Diego to San Juan Luis Munoz Marin Intl Airport. There are no popular flight routes from San Diego to San Juan Luis Munoz Marin Intl Airport.
Search flight deals

  • How far is San Diego to San Juan Luis Munoz Marin Intl by plane?

    The straight-line distance from San Diego to San Juan Luis Munoz Marin Intl is 3301.1 mi. Typically, this will take 8h 48m by plane in normal conditions.

  • When did momondo last update prices for flights from San Diego Airport to San Juan Luis Munoz Marin Intl Airport?

    Prices for flights from San Diego Airport to San Juan Luis Munoz Marin Intl Airport refresh daily.

  • How many operators does momondo search for flights from San Diego Airport to San Juan Luis Munoz Marin Intl Airport?

  • How old do you have to be to fly from San Diego Airport to San Juan Luis Munoz Marin Intl Airport?

    The minimum age a child must be to fly alone is five but airlines that offer an unaccompanied minor (UNMR) service will have their own age restrictions, including rules around flight length, timings, and stopovers. We always recommend checking with the individual airline you are booking with to travel from San Diego Airport to San Juan Luis Munoz Marin Intl Airport.

  • What documentation or ID do you need to fly to San Juan Luis Munoz Marin Intl Airport?

    The required travel and health documents for your San Juan Luis Munoz Marin Intl Airport trip may vary depending on your itinerary and personal circumstances. As a general rule, you should carry multiple documents, including a national ID card or driver's license and a passport valid for six months after your intended arrival at San Juan Luis Munoz Marin Intl Airport. We recommend that you seek guidance from your airline or a reliable third party such as IATA.

  • What is the most popular airline from San Diego to San Juan Luis Munoz Marin Intl Airport?

Best airlines flying from San Diego to San Juan Luis Munoz Marin Intl Airport

Compare and see reviews for airlines that fly from San Diego to San Juan Luis Munoz Marin Intl Airport with momondo
Airline
Rating
Free Cancellation
Price
Spirit AirlinesPriceFrom $125Free CancellationRating
6.3
8,175 reviews
Search Spirit Airlines flights
FrontierPriceFrom $225Free CancellationRating
5.8
3,084 reviews
Search Frontier flights
DeltaPriceFrom $278Free CancellationRating
7.9
8,005 reviews
Search Delta flights
United AirlinesPriceFrom $295Free CancellationRating
7.4
9,095 reviews
Search United Airlines flights
American AirlinesPriceFrom $320Free CancellationRating
7.2
11,049 reviews
Search American Airlines flights
JetBluePriceFrom $321Free CancellationRating
7.2
2,899 reviews
Search JetBlue flights
SouthwestPriceFrom $382Free CancellationRating
7.9
4,252 reviews
Search Southwest flights
Alaska AirlinesPriceFrom $474Free CancellationRating
8.0
11,431 reviews
Search Alaska Airlines flights

Traveling to a place near San Juan?

Book flights to San Juan if you plan to visit one of these locations
Carolina
Fajardo
Dorado
Luquillo
Humacao
Caguas
Rio Grande
Bayamón

Why use momondo?

Why should I use momondo to find a flight deal from San Diego to San Juan?

momondo collates all your flight options in one place and lets you filter them to find the perfect flight from San Diego to San Juan. momondo saves you time and could save you money on your trip.

Can I find flights from San Diego to San Juan with flexible booking policies on momondo?

momondo does allow users to show only those flights to San Juan from San Diego which offer a flexible booking policy as well as other useful filters and features.

How can momondo help me find flights from San Diego to San Juan?

momondo offers useful filters to help you find the right flight. Choose specific flight times, airports or even what payment method you prefer. We have numerous options to help you book your ideal flight from San Diego to San Juan.

I’m not ready to book a flight from San Diego to San Juan right now. Can momondo alert me if prices change?

If you are simply researching potential flights to San Juan, momondo offers a useful price alert feature which will track prices for flights to San Juan from San Diego and alert you when they change.

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