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Cheap flights from San Diego to Puerto Rico from $126

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 Puerto Rico departing on 5/3. 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 Puerto Rico

Cheap round-trip flights

Enter your travel dates to find the best prices.
Multiple Airlines Logo
6:45 am - 12:05 am
SAN
-
SJU
14h 20m
2 stops
Multiple Airlines Logo
5:45 am - 11:29 pm
SJU
-
SAN
20h 44m
1 stop
$361Multiple Airlines
Thu, Apr 9 - Fri, Apr 17
Southwest Logo
6:20 am - 10:40 pm
SAN
-
SJU
13h 20m
1 stop
Southwest Logo
11:25 am - 9:30 pm
SJU
-
SAN
13h 05m
2 stops
$362Southwest
Wed, Apr 8 - Wed, Apr 15
Multiple Airlines Logo
6:45 am - 11:07 am
SAN
-
SJU
25h 22m
1 stop
Multiple Airlines Logo
3:08 am - 11:06 pm
SJU
-
SAN
22h 58m
2 stops
$363Multiple Airlines
Mon, Apr 6 - Mon, Apr 13
American Airlines Logo
6:30 am - 8:51 pm
SAN
-
SJU
11h 21m
2 stops
American Airlines Logo
11:59 pm - 8:15 am
SJU
-
SAN
11h 16m
1 stop
$364American Airlines
Tue, May 5 - Mon, May 11
Multiple Airlines Logo
9:28 pm - 12:51 am
SAN
-
SJU
24h 23m
2 stops
Multiple Airlines Logo
5:45 am - 11:29 pm
SJU
-
SAN
20h 44m
1 stop
$366Multiple Airlines
Fri, Apr 10 - Fri, Apr 17
Multiple Airlines Logo
9:28 pm - 1:29 pm
SAN
-
SJU
37h 01m
2 stops
Multiple Airlines Logo
6:55 pm - 9:35 pm
SJU
-
SAN
29h 40m
1 stop
$367Multiple Airlines
Sun, Apr 5 - Fri, Apr 10
Multiple Airlines Logo
6:45 am - 12:05 am
SAN
-
SJU
14h 20m
2 stops
Multiple Airlines Logo
5:45 am - 12:11 am
SJU
-
SAN
21h 26m
1 stop
$369Multiple Airlines
Thu, Apr 9 - Thu, Apr 16
Multiple Airlines Logo
6:45 am - 11:07 am
SAN
-
SJU
25h 22m
1 stop
Multiple Airlines Logo
7:17 pm - 8:34 am
SJU
-
SAN
40h 17m
2 stops
$370Multiple Airlines
Sun, Apr 12 - Fri, Apr 17
United Airlines Logo
6:20 am - 11:09 pm
SAN
-
BQN
13h 49m
2 stops
United Airlines Logo
12:15 am - 9:21 am
BQN
-
SAN
12h 06m
1 stop
$461United Airlines
Wed, May 20 - Tue, Jun 2
United Airlines Logo
7:10 am - 11:09 pm
SAN
-
BQN
12h 59m
1 stop
United Airlines Logo
12:15 am - 9:21 am
BQN
-
SAN
12h 06m
1 stop
$529United Airlines
Wed, May 20 - Tue, Jun 2

Southwest flights from San Diego to Puerto Rico

Our best Southwest deals on San Diego to Puerto Rico flight tickets
Southwest
Apr 8
SAN6:20 amSan Diego
13h 20m
1 stop
SJU10:40 pmSan Juan Luis Munoz Marin Intl
Apr 15
SJU11:25 amSan Juan Luis Munoz Marin Intl
13h 05m
2 stops
SAN9:30 pmSan Diego
$362
Southwest
Apr 26
SAN10:30 pmSan Diego
11h 40m
1 stop
SJU1:10 pmSan Juan Luis Munoz Marin Intl
May 2
SJU2:10 pmSan Juan Luis Munoz Marin Intl
12h 05m
2 stops
SAN11:15 pmSan Diego
$383
Southwest
May 1
SAN7:00 pmSan Diego
10h 55m
2 stops
SJU8:55 amSan Juan Luis Munoz Marin Intl
May 8
SJU6:50 amSan Juan Luis Munoz Marin Intl
14h 05m
2 stops
SAN5:55 pmSan Diego
$385

American Airlines flights from San Diego to Puerto Rico

Our best American Airlines deals on San Diego to Puerto Rico flight tickets
American Airlines
May 5
SAN6:30 amSan Diego
11h 21m
2 stops
SJU8:51 pmSan Juan Luis Munoz Marin Intl
May 11
SJU11:59 pmSan Juan Luis Munoz Marin Intl
11h 16m
1 stop
SAN8:15 amSan Diego
$364
American Airlines
Apr 18
SAN4:41 pmSan Diego
8h 51m
1 stop
SJU4:32 amSan Juan Luis Munoz Marin Intl
Apr 27
SJU11:59 pmSan Juan Luis Munoz Marin Intl
11h 16m
1 stop
SAN8:15 amSan Diego
$376
American Airlines
May 5
SAN9:45 pmSan Diego
11h 44m
2 stops
SJU12:29 pmSan Juan Luis Munoz Marin Intl
May 11
SJU11:59 pmSan Juan Luis Munoz Marin Intl
11h 16m
1 stop
SAN8:15 amSan Diego
$384

momondo Fare Finder

 
Customize your flight search to find flights from San Diego to Puerto Rico 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 March 6, 2026.
Use the filters below to find and compare flights from San Diego to Puerto Rico that are best for you.

Fly from

Fly to

Route

Depart

Return

Price

Cheapest round-trip

San DiegoSan Juan

SAN - SJU

SANSJU

San Diego

Thu 4/9

6:45 am-12:05 am

2 stops14h 20m

San Juan Luis Munoz Marin Intl

Fri 4/17

5:45 am-11:29 pm

1 stop20h 44m

$361

San DiegoSan Juan

SAN - SJU

SANSJU

San Diego

Wed 4/8

6:20 am-10:40 pm

1 stop13h 20m

San Juan Luis Munoz Marin Intl

Wed 4/15

11:25 am-9:30 pm

2 stops13h 05m

$362

San DiegoSan Juan

SAN - SJU

SANSJU

San Diego

Mon 4/6

6:45 am-11:07 am

1 stop25h 22m

San Juan Luis Munoz Marin Intl

Mon 4/13

3:08 am-11:06 pm

2 stops22h 58m

$363
Quickest round-trip

San DiegoSan Juan

SAN - SJU

SANSJU

San Diego

Tue 5/5

6:30 am-8:51 pm

2 stops11h 21m

San Juan Luis Munoz Marin Intl

Mon 5/11

11:59 pm-8:15 am

1 stop11h 16m

$364

San DiegoSan Juan

SAN - SJU

SANSJU

San Diego

Fri 4/10

9:28 pm-12:51 am

2 stops24h 23m

San Juan Luis Munoz Marin Intl

Fri 4/17

5:45 am-11:29 pm

1 stop20h 44m

$366

San DiegoSan Juan

SAN - SJU

SANSJU

San Diego

Sun 4/5

9:28 pm-1:29 pm

2 stops37h 01m

San Juan Luis Munoz Marin Intl

Fri 4/10

6:55 pm-9:35 pm

1 stop29h 40m

$367

San DiegoSan Juan

SAN - SJU

SANSJU

San Diego

Thu 4/9

6:45 am-12:05 am

2 stops14h 20m

San Juan Luis Munoz Marin Intl

Thu 4/16

5:45 am-12:11 am

1 stop21h 26m

$369

San DiegoSan Juan

SAN - SJU

SANSJU

San Diego

Sun 4/12

6:45 am-11:07 am

1 stop25h 22m

San Juan Luis Munoz Marin Intl

Fri 4/17

7:17 pm-8:34 am

2 stops40h 17m

$370

San DiegoAguadilla

SAN - BQN

SANBQN

San Diego

Wed 5/20

6:20 am-11:09 pm

2 stops13h 49m

Aguadilla Borinquen

Tue 6/2

12:15 am-9:21 am

1 stop12h 06m

$461

San DiegoAguadilla

SAN - BQN

SANBQN

San Diego

Wed 5/20

7:10 am-11:09 pm

1 stop12h 59m

Aguadilla Borinquen

Tue 6/2

12:15 am-9:21 am

1 stop12h 06m

$529

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 Puerto Rico from

How to get the cheapest flight ticket from San Diego to Puerto Rico

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 Puerto Rico?

If you don’t want to visit Puerto Rico in October, then you should wait until September to fly from San Diego, when ticket prices are also cheap, with an average price of $439.

How far in advance should I book a flight to Puerto Rico?

You are more likely to see cheaper flights to Puerto Rico from San Diego when booking weeks ahead of your departure date. In general, you can expect to find flights to Puerto Rico for around $522 when searching weeks out. However, flight prices might be lower outside of this timeframe. For example, people recently found flights to Puerto Rico from San Diego for as low as $434 on momondo.

Can stopping save me money on San Diego to Puerto Rico flights?

You could potentially save up to 16% on your flight if you consider stops on a San Diego to Puerto Rico flight.

Cheap San Diego to Puerto Rico flight deals and tips

Find info about flight duration, direct flights, and airports for your flight from San Diego to Puerto Rico

Fastest flight time

10h 00m

Direct flights

None
The fastest flight from San Diego to Puerto Rico takes 10h 00m
There are no direct flights from San Diego to Puerto Rico. There are no popular flight routes from San Diego to Puerto Rico.
Search flight deals

  • When did momondo last update prices for flights from San Diego Airport to Puerto Rico?

    Prices for flights from San Diego Airport to Puerto Rico refresh daily.

  • How many operators does momondo search for flights from San Diego Airport to Puerto Rico?

  • How old do you have to be to fly from San Diego Airport to Puerto Rico?

    Although the minimum age for a child to fly alone is five, airlines that offer an unaccompanied minor (UMNR) service may have their own age limits, which could be impacted by factors such as flight length, timing, and layovers. It is recommended that you verify with the airline you are booking with for travel from San Diego Airport to Puerto Rico.

  • What documentation or ID do you need to fly to Puerto Rico?

    The travel and health documents required for your trip to Puerto Rico can vary based on your itinerary and personal situation. As a rule, consider having multiple documents such as a national ID card or driver’s license, and a passport valid for six-months after you plan to arrive at Puerto Rico. We always recommend checking with your airline or a trusted third party such as IATA to get advice.

  • What is the most popular plane model from San Diego to Puerto Rico?

Best airlines flying from San Diego to Puerto Rico

Compare and see reviews for airlines that fly from San Diego to Puerto Rico with momondo
Airline
Rating
Free Cancellation
Price
DeltaPriceFrom $176Free CancellationRating
7.9
8,258 reviews
Search Delta flights
United AirlinesPriceFrom $182Free CancellationRating
7.4
9,403 reviews
Search United Airlines flights
JetBluePriceFrom $214Free CancellationRating
7.2
2,896 reviews
Search JetBlue flights
FrontierPriceFrom $215Free CancellationRating
5.7
3,041 reviews
Search Frontier flights
Spirit AirlinesPriceFrom $260Free CancellationRating
6.3
8,497 reviews
Search Spirit Airlines flights
American AirlinesPriceFrom $322Free CancellationRating
7.1
11,393 reviews
Search American Airlines flights
SouthwestPriceFrom $382Free CancellationRating
8.0
4,309 reviews
Search Southwest flights
Alaska AirlinesPriceFrom $448Free CancellationRating
8.0
11,992 reviews
Search Alaska Airlines flights

Why use momondo?

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

Finding the right flight to Puerto Rico from San Diego is quick and easy when you have a range of options in front of you, from reputable agents and recognisable airlines. Options that can then be filtered down to find the best fit. That is what momondo does. We make finding flights to Puerto Rico quick and easy, saving you time and money.

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

Yes. momondo allows you to filter the results for San Diego to Puerto Rico flights to just show those with flexible booking policies.

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

Once you have performed a search in the form on the page, momondo provides useful filters and insights. We can show you the cheapest days and times to fly as well as help filter your options to help you make an informed choice when booking flights to Puerto Rico from San Diego.

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

Price alerts on flights to Puerto Rico from San Diego are quick and easy to set up on momondo. Simply perform a search and select the price alert feature. It is as simple as that.

An easier way to manage your Puerto Rico trip

We make it super easy to schedule, organize and travel with friends or family. Trips is free — and available to use no matter where you book.
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Find better results for your trip to Puerto Rico

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Popular flights according to clicks in the last 7 days on momondo
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