$113 Find Cheap Flights from San Diego to Puerto Rico

This is the cheapest one-way flight price found by a KAYAK user in the last 72 hours by searching for a flight from San Diego to Puerto Rico departing on 1/6. Fares are subject to change and may not be available on all flights or dates of travel. Click the price to replicate the search for this deal.
1 adult
1 adult, Economy, 0 bags

KAYAK searches hundreds of travel sites at once for deals on flights to Puerto Rico

Travelers love KAYAK
41,299,237 searches in the past 7 days on KAYAK

Save 24% or moreCompare multiple travel sites with one search.

Track pricesNot ready to book? Create a price alert for when prices drop.

Bundle and saveSave money when you bundle your flight + hotel.

Filter your dealsChoose cabin class, free Wi-Fi and more.

Flight Deals
Booking Insights
Flight Deals

Book Cheap San Diego to Puerto Rico Plane Tickets

 
Here are some of the best deals found on KAYAK recently from the most popular airlines for round-trip flights from San Diego to Puerto Rico that are departing in the next months. While these flights were available on KAYAK in the last 72 hours, prices and availability are subject to change and deals may expire.
Discover the best prices for you by selecting your travel dates on KAYAK.

Recent round-trip flight deals from San Diego to Puerto Rico

Wed, Feb 11 - Mon, Feb 16
United Airlines Logo
7:00 am - 11:57 pmSAN-BQN
12h 57m2 stops
United Airlines Logo
1:09 am - 10:20 amBQN-SAN
13h 11m1 stop
$322United Airlines
Find Deal
Fri, Feb 20 - Wed, Mar 4
United Airlines Logo
10:15 pm - 1:17 pmSAN-SJU
11h 02m1 stop
United Airlines Logo
3:46 pm - 11:40 pmSJU-SAN
11h 54m2 stops
$332United Airlines
Find Deal
Tue, Dec 2 - Sat, Dec 13
American Airlines Logo
12:27 pm - 12:44 amSAN-SJU
8h 17m1 stop
American Airlines Logo
6:54 am - 3:19 pmSJU-SAN
12h 25m2 stops
$334American Airlines
Find Deal
Fri, Dec 12 - Sun, Dec 21
Multiple Airlines Logo
6:34 am - 12:49 amSAN-SJU
38h 15m2 stops
Multiple Airlines Logo
1:22 pm - 10:05 pmSJU-SAN
12h 43m1 stop
$338Multiple Airlines
Find Deal
Mon, Dec 8 - Thu, Dec 11
Delta Logo
7:05 pm - 1:59 pmSAN-SJU
14h 54m2 stops
Delta Logo
7:00 am - 6:13 pmSJU-SAN
15h 13m2 stops
$360Delta
Find Deal
Fri, Feb 20 - Wed, Mar 4
Southwest Logo
10:50 am - 1:35 amSAN-SJU
10h 45m2 stops
Southwest Logo
5:40 am - 2:40 pmSJU-SAN
13h 00m2 stops
$373Southwest
Find Deal
Tue, Dec 2 - Mon, Dec 8
American Airlines Logo
9:42 am - 12:44 amSAN-SJU
11h 02m2 stops
American Airlines Logo
6:25 am - 7:02 pmSJU-SAN
16h 37m1 stop
$374American Airlines
Find Deal
Fri, Mar 6 - Tue, Mar 10
Southwest Logo
7:30 pm - 10:50 amSAN-SJU
11h 20m2 stops
Southwest Logo
6:40 am - 7:25 pmSJU-SAN
15h 45m1 stop
$382Southwest
Find Deal
Wed, Mar 4 - Mon, Mar 9
JetBlue Logo
12:40 pm - 2:52 amSAN-BQN
10h 12m1 stop
JetBlue Logo
1:32 am - 11:29 amBQN-SAN
12h 57m1 stop
$409JetBlue
Find Deal
Sat, Feb 28 - Mon, Mar 9
JetBlue Logo
9:00 pm - 10:25 pmSAN-SJU
21h 25m1 stop
JetBlue Logo
10:59 pm - 11:29 amSJU-SAN
15h 30m1 stop
$430JetBlue
Find Deal
Booking Insights

KAYAK's insights & trends for San Diego to Puerto Rico flights

Get data-powered insights and trends into flights from San Diego to Puerto Rico to help you find the cheapest flights, the best time to fly and much more.

What is the cheapest month to fly from San Diego to Puerto Rico?

To calculate monthly average prices, KAYAK takes all prices for each month over the last year for round-trip flights from San Diego to Puerto Rico, removes the top 0.1% to account for outliers, and then takes the median of all values for each month.

The cheapest month for flights from San Diego to Puerto Rico is January, when tickets cost $419 (return) on average. On the other hand, the most expensive months are December and June, when the average cost of round-trip tickets is $684 and $585 respectively.

What’s the cheapest day of the week to fly from San Diego to Puerto Rico?

The average price of all round-trip flights from San Diego to Puerto Rico clicked on KAYAK for each day over the last 12 months.

When flying from San Diego to Puerto Rico, you should consider leaving on a Saturday and avoid Sundays if you are looking for the best rates. For your return to San Diego, you’ll find the best rates on Thursdays and the most expensive ones on Mondays.

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

To calculate weekly average prices, KAYAK takes all prices for each week before departure over the last year for round-trip flights from San Diego to Puerto Rico, removes the top 0.1% to account for outliers, and then takes the average of all the values for each week.

To get a below average price on the flight from San Diego to Puerto Rico, you should book around 3 weeks before departure, which saves you about 21% compared to booking last minute. For the absolute cheapest price, our data suggests you should book 17 weeks before departure.

Good to know

Low seasonOctober
Cheapest flight$113
Best time to beat the crowds with an average 32% drop in price.
Most popular time to fly with an average 21% increase in price.
Flight from San Diego to San Juan

FAQs - booking Puerto Rico flights

  • What type of travel documents will I need to travel to Puerto Rico?

    Because Puerto Rico is a United States territory, there is no need to take either a passport or a visa with you to travel to this location. It is important to remember that you will need proper identification to travel to Puerto Rico just as you would any other state in the United States.

  • If I plan on renting a car when I arrive in Puerto Rico, what child car seat laws should I be aware of?

    In Puerto Rico, every child under the age of four needs to travel in a child safety seat. For any children that are between the ages of four and eight years old or less than 57 inches tall, they must travel in a booster seat. All children that are 12 years old or younger need to travel in the rear of the vehicle.

  • If I am flying to San Juan Luis Munoz Marin International Airport, are there any easily accessible public transportation choices to get me from the airport to downtown San Juan?

    One of the most convenient ways to get from the airport to downtown is aboard the line D53 bus that makes trips from the airport to both Old San Juan as well as the convention center in the center of San Juan.

  • If I want to travel to the small island of Vieques on the eastern side of Puerto Rico, what is the best airport choice in Puerto Rico for me to get there?

    Your best choice is to take one of the many flights available to the San Juan Luis Munoz Marin International Airport. From there, you can travel aboard Cape Air by plane, or you can utilize the Puerto Rico Ferry service that makes the trip from the Ceiba Harbor to the island in around 1h.

  • How does KAYAK find such low prices on flights from San Diego to Puerto Rico?

    KAYAK is a travel search engine. That means we look across the web to find the best prices we can find for our users. With over 2 billion flight queries processed yearly, we are able to display a variety of prices and options on flights from San Diego to Puerto Rico.

  • How does KAYAK's flight Price Forecast tool help me choose the right time to buy my flight ticket from San Diego to Puerto Rico?

    KAYAK’s flight Price Forecast tool uses historical data to determine whether the price for a flight from San Diego to Puerto Rico is likely to change within 7 days, so travelers know whether to wait or book now.

  • What is the Hacker Fare option on flights from San Diego to Puerto Rico?

    Hacker Fares allow you to combine one-way tickets in order to save you money over a traditional round-trip ticket. You could then fly from San Diego to Puerto Rico with an airline and back with another airline.

  • What is KAYAK's "flexible dates" feature and why should I care when looking for a flight from San Diego to Puerto Rico?

    Sometimes travel dates aren't set in stone. If your preferred travel dates have some wiggle room, flexible dates will show you all the options when flying from San Diego to Puerto Rico up to 3 days before/after your preferred dates. You can then pick the flights that suit you best.

  • What is the cheapest time of day to fly to Puerto Rico?

    The cheapest time of day to fly to Puerto Rico is generally in the afternoon, when round-trip flights cost $485 on average. On average, there is no price difference when choosing to fly in the morning or the evening on this flight route. The most expensive time of day to fly to Puerto Rico is generally in the evening, which is peak travel time and where the average cost of a ticket is $569.

Top tips for finding cheap flights to Puerto Rico

  • A very popular destination for passengers traveling from San Diego to Puerto Rico is to fly to the San Juan Luis Munoz Marin International Airport (SJU). On this route, you'll find one-stop service aboard United Airlines, American Airlines, and JetBlue.
  • For passengers looking for a cheaper alternative to make the trip from San Diego (SAN) to the San Juan Luis Munoz Marin International Airport, consider the two-stop flights offered by both Spirit Airlines and Frontier Airlines that offer substantially lower fares than the one-stop offerings.
  • If you are looking for a public transportation alternative for getting to the San Diego International Airport, the Metropolitan Transit System's route 992 makes stops at both of the terminal buildings at the airport, offering service from downtown San Diego.
  • For travelers looking for a comfortable place to wait for their flight at the San Diego International Airport before their trip to Puerto Rico, one of the best choices is the Aspire Lounge inside terminal 2 at the airport. There is also a United Airlines United club and a Delta Airlines Sky Club at this airport.
  • If you are going to be traveling from San Diego to the Ponce Airport (PSE) in Puerto Rico, you will find a one-stop flight aboard a combination of Alaska Airlines and Spirit Airlines with a layover at Orlando Airport (MCO).

Reviews of the top 5 airlines serving from San Diego to Puerto Rico

 
Need help choosing which airline to fly with from San Diego to Puerto Rico? KAYAK airline reviews give an overall score for each airline based on loads of factors, including comfort, boarding, in-flight entertainment and more, to make your decision easier. See airline scores according to verified KAYAK customer reviews.
8.0
Alaska AirlinesOverall score based on 11247 reviews
7.1Food
7.8Comfort
8.1Boarding
8.5Crew
7.0Entertainment
Airline reviews

I recently traveled with my service animal, and before boarding, a gate agent kindly arranged for me to have an empty seat next to me to give my dog more space. However, once on board, a male crew member spoke to me in a rude and loud tone, insisting my dog stay on the floor or my lap—even after I explained what the gate agent had approved. His tone and behavior were unprofessional and made me feel uncomfortable in front of other passengers. I understand and respect airline policies, but I would appreciate if this could be reviewed to ensure better awareness and sensitivity toward passengers traveling with service animals. Thank you for your understanding.

6.0 GoodSofia, Oct 2025SAN - DCA
Read more Alaska Airlines reviews

I recently traveled with my service animal, and before boarding, a gate agent kindly arranged for me to have an empty seat next to me to give my dog more space. However, once on board, a male crew member spoke to me in a rude and loud tone, insisting my dog stay on the floor or my lap—even after I explained what the gate agent had approved. His tone and behavior were unprofessional and made me feel uncomfortable in front of other passengers. I understand and respect airline policies, but I would appreciate if this could be reviewed to ensure better awareness and sensitivity toward passengers traveling with service animals. Thank you for your understanding.

Check in online didn't accept my confirmation number so i could only check in with assistance at the airport and ended up with s creepy middle seat.

It was the most expensive Alaska Airlines ticket I’ve ever purchased. I had a middle seat with no legroom or space compared to any other middle seat I’ve hadThere was a silver box under the seat that took up 70% of my legroom on the most narrow 737 max the crew flat out would not help they would not help with bags they would not help with garbage there was no coffee,It was definitely not one of my better experiences on Alaska.

Sitting on the ground for 2 hours waiting for a gate wasn't fun.

It was a great experience, friendly staff and good snacks

Very mediocre, and disappointing for the price of the ticket

My flight wait is 3 hours delayed due to Unknown reason. We waited a very long time in the tarmac. Our flight 24 was scheduled @ 7, therefore we left my house at 330 to park our car. We were at the gate @ 530, then we were told at 6a that it will be late , we boarded at 930 but did not take off until 1015. Therefore my arranged pick up in JFK was cancelled because of no show. Before all these I got an email offers of changing my flight to a different date which I took a day earlier. I will never again take Alaska Airlines, very Inefficient and Disappointing.

Such great crew, from checkin to the plane. So friendly and helpful, I was genuinely impressed.

Seats extremely uncomfortable, no entertainment, no snacks, and when boarding, half of the passengers needed to check in the carry on luggage without any explanation.

The flight was jumping between being delayed and closer to schedule about 5 times. Alaska air website showed incorrect times while google had latest info. This panic was horrible to deal with.

Ever since Southwest starting charging for bags, passengers don't want to pay to check their bags, so the gate agents have to beg people to check their roller bags now because there's "not enough space". This was a terrible business move by Southwest.

Sacrament staff are always polite and helpful. Airport is easy to maneuver and boarding is straightforward.

As always, the entire Southwest experience was wonderful, from online booking to flight to baggage retrieval. Very grateful.

The weather could have been better. There was a 40 minute ATC delay in SFO because of marine fog and a micro cell storm delayed landing and take-off at Nashville. The gate was changed 5 minutes from boarding from gate B3 to gate C23 at Nashville airport.

The cabin was quiet for the redeye flight. The area was clean. The staff was great. The 787 Max was in good condition. Drawbacks were that the seat widths were tight for some passengers. The seat padding was at best average and for a long flight uncomfortable.

Delayed flight. Nicest crew member was a SW pilot flying seated next to me who kindly move to seat the final passenger. Flight extra delayed. My cup of refreshment of ginger ale was so packed with ice it was literally 2 sips.

No trays in our seats, we sat in first row, purchased a business class fare. Had to hold our drinks and snack in our hands. No plugs for our cell phones. Had to pay for it a drink cocktail each. Seats so uncomfortable.

Flight wasn’t even full, but too many carry-ons caused us to run out of bin space. New bag fee has folks who would usually check their bags carrying on. Watching Southwest morph into Spirit/Frontier is so sad to watch

Southwest is Southwest. No frills. If you're luck enough to get a happy crew (we did), then it makes for a nicer flight.

It was a perfect flight in all aspects! Both legs!

Staff were friendly and happy. Delta could make sure passengers that don't have the app know of changes. Without Kayak I would not have known about the change of gate or the delay. Kayak was faster to notify me.

The flight used a B767 with a very old interior from before 2014. The entertainment system did not work at all during the flight despite attempts to reset the system. It was like they flew this route just to be competitive.

Delayed flight (1hour) plus a long layover after an overnight flight with no backup plane available.

Flight delayed for two and half hours and then canceled altogether due to mechanical issues. No mechanic onsite to fix so had to send one from LAX.

My husband upgraded our seats and I don't know if it was due to the type of planet was or if they didn't upgrade our seats. We were supposed to be in I believe comfort seats and they were just as tight as any other seat- no leg room and we are very tall people but at least it wasn't extremely cold. My husband did put in a complaint about our seating because he paid extra and if we would have known that the space and the tightness would have been the same, we just would have gotten the emergency row emergency row seats that we normally get. We love Delta but both our flights coming home we're not good. Oh I forgot to mention that on our flight to Hawaii our luggage wheels got broke and we had to purse new luggage on vacation then we never had this problem so we didn't know protocol and reported it after we got home only for them to tell is we only had 24hrs to report the damage. Not sure what was going on with Delta this vacation trip.

Crew was excellent. Comfort seats not as nice as other kinds of planes.

It was a great flight and the stewards and stewardess were all kind and accommodating!! The seats were comfortable and entertainment screen excellent!

There are 4 flights in consecutive gates with about the same departure time. Two flights were boarding at the same time. One was delayed or boarding would be happening at the same time. I am not sure what Delta and LAX need to do to have a better layout at the end of Terminal 2

There was a security issue at the airport and we were unable to land. We circled endlessly and then landed at another airfield for fuel. We then circled the airport again, almost landed but didn’t fully touch down before circling again. I am thankful to the crew for keeping us safe- the issue was the airline and staff at the airport getting us seats on our connecting flights. That part was hours of searching for someone and getting in double my steps.

Most aspects were good however if they assign boarding zones they ought to enforce them or why bother? My luggage from SAN-JFK-MAD was lost in NY so I without my main bag for two days upon arrival in Spain. They were helpful in tracking it and eventually delivered it to my hotel. The flub was because of a delay upon arrival in NYC. I had booked 2 1/2 hours between flights but we had to hold on the taxiway for an hour after landing while waiting for a clear gate which likely caused the baggage error.

My experience on this United Airlines flight was highly uncomfortable, primarily due to two issues: Cabin Temperature: The temperature on the Boeing 737 MAX 8 was unacceptably high, feeling consistently around 80 degrees throughout the flight. This made sleeping impossible and significantly detracted from the experience. Seating Arrangement: Being stuck in a middle seat for a six-and-a-half-hour overnight flight compounded the discomfort. Moving forward, I will always purchase a seat assignment to avoid this situation.

Premium Plus is a really good idea for longer flights

Same as last comment. Food sucks. Quality. Not surprising most people have no clue about nourishment Clearly

The flight attendants were great, I joked with one I can’t remember her name, a blond, really sweet. I thought it was run well very professional. This was great i survived Spirit, I know for which I speak.

We were in business class. the angled seats in that class do not have a real window view & the placement of the controls are bad. But we knew that. But the food options were mediocre. The taste was fine, but the size was for a child. It’s just really feels like United is skimping on everything. Even when we were in the Polaris lounge they did not have diet sodas. They said they were out no Coke zero no Diet Coke, etc. I do not think the portion of nuts they serve on the plane could get any smaller. Really a minimal service and offer for what you’re paying for in business.

I was in first class. The outlets at my seat did not work. The plane was shabby and run down. I had prepurchsed a day subscription for internet that was not redeemable. I had to repurchase the internet for my flight and then it didn’t work anyway. Quite disappointed in what was supposed to be the launch of a great vacation.

We had to deboard 2 times due to maintenance issues. They changed the plane, and then we got deviated to LAX due to maibtenance issues on the other plane, had to sleep at LAX and los a full day.

From the first moment you interact with United Airlines, you can expect nothing less but extreme frustration. The baggage handler at the bag drop seems completely unbothered by the presence of customers waiting in line. No help was extended to load the baggage whatsoever. And if any of your bags is overweight by 0.01 pound they will make you re-distribute everything in your suitcase just to play power trip. When it was time to board no help was extended to customers to locate their seats. Moreover. It was a chaotic mess at the gate when it was unclear who should board first and everyone just bunched up, trying to get on the plane. I am sure the crew was doing their best to perform their jobs while being paid their wages however it shouldn’t be that hard to smile once or twice when you’re in the business if serving customers. It is a shame for the United States of America to have a flagship carrier of such low caliber. Our flight was also delayed by about an hour and a half due to further delays prior to our inbound flight. Being someone who has travelled for both business and leisure in Asia, Europe, and South America I have never experienced such poor quality of service.

I understand stuff happens, but plane failures are likely due to lack of maintenance. Additionally, air conditioning wasn't working, no snack/drink service, no WiFi. Fortunately, the crew was communicative and light-hearted. United grabbed another plane and we were able to get to our destination.

The pilots were late and it made us 1 hour late. The meat was tough and bok choy was also tough.

The flight was smooth, the pilot kept us informed about delays and we arrived more of less on time

The flight was flawless and we even arrived between 20 and 25 minutes early!

Always seated jammed in rear of aircraft Admirals Club food at DFW terminal D was absolute worst food experience and I pay $600/year to eat this dried out junk

Mostly good. Flight was crowded but Airline personnel were very friendly & accommodating. It would be good to have savory snacks rather than just sweet Biscoff cookies.

It was a red eye flight, so no meals were provided, but it was fine with snacks. The seats felt cramped and almost too narrow.

Very crowded flight but what can you expect these days?? Crew was accommodating.

The seats in economy were appeared to be quite thin and lack sufficient cushioning to be comfortable. Perhaps it was my seating position but the plane seemed notably load.

The entertainment package was vast and the selections were very current. Keep updating it was great.

The seat was so hard my tailbone was aching The crew was kind of a b**** because I made a joke that I didn't care if they close the door I total c*** when she was trying to f****** act like she was mad at me because I said that The flight was bumpy. Sure you didnt have control over that.

4 hours late, including over +1 hour waiting in plane to take off. Baggage left behind too.

Everything you need to know for your flight from San Diego to Puerto Rico

Information on your arrival and departure airports