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Cheap Flights from Puerto Rico to San Diego

 
Discover the best prices for you by selecting your travel dates on KAYAK.

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

Thu, Sep 10 - Mon, Sep 14
American Airlines Logo
4:19 pm - 11:55 pmSJU  San Juan Luis Munoz Marin Intl-SAN San Diego
10h 36m1 stop Dallas/Fort Worth
American Airlines Logo
10:46 pm - 1:57 pmSAN  San Diego-SJU San Juan Luis Munoz Marin Intl
12h 11m2 stops Chicago O'Hare Intl Miami
$274American Airlines
Thu, Sep 10 - Mon, Sep 14
American Airlines Logo
4:19 pm - 11:55 pmSJU  San Juan Luis Munoz Marin Intl-SAN San Diego
10h 36m1 stop Dallas/Fort Worth
American Airlines Logo
10:30 pm - 11:00 amSAN  San Diego-SJU San Juan Luis Munoz Marin Intl
9h 30m1 stop Miami
$274American Airlines
Thu, Sep 17 - Mon, Sep 21
JetBlue Logo
12:56 pm - 7:26 pmSJU  San Juan Luis Munoz Marin Intl-SAN San Diego
9h 30m1 stop Atlanta Hartsfield-Jackson
JetBlue Logo
9:59 pm - 12:03 pmSAN  San Diego-SJU San Juan Luis Munoz Marin Intl
11h 04m1 stop New York John F Kennedy Intl
$356JetBlue
Thu, Dec 3 - Mon, Dec 7
JetBlue Logo
12:30 pm - 6:55 pmSJU  San Juan Luis Munoz Marin Intl-SAN San Diego
10h 25m1 stop Orlando
JetBlue Logo
6:35 am - 11:20 pmSAN  San Diego-SJU San Juan Luis Munoz Marin Intl
12h 45m1 stop Baltimore/Washington
$356JetBlue
Wed, Sep 16 - Wed, Sep 23
United Airlines Logo
1:00 am - 11:35 amSJU  San Juan Luis Munoz Marin Intl-SAN San Diego
13h 35m2 stops Newark Los Angeles
United Airlines Logo
6:15 am - 8:38 pmSAN  San Diego-SJU San Juan Luis Munoz Marin Intl
11h 23m2 stops Los Angeles Houston George Bush Intcntl
$426United Airlines
Mon, Sep 14 - Tue, Sep 22
United Airlines Logo
7:00 am - 5:26 pmSJU  San Juan Luis Munoz Marin Intl-SAN San Diego
13h 26m2 stops Houston George Bush Intcntl Los Angeles
United Airlines Logo
9:05 pm - 11:57 amSAN  San Diego-SJU San Juan Luis Munoz Marin Intl
11h 52m1 stop Newark
$426United Airlines
Thu, Sep 17 - Wed, Sep 23
Delta Logo
12:56 pm - 7:26 pmSJU  San Juan Luis Munoz Marin Intl-SAN San Diego
9h 30m1 stop Atlanta Hartsfield-Jackson
Delta Logo
7:30 am - 11:49 pmSAN  San Diego-SJU San Juan Luis Munoz Marin Intl
13h 19m1 stop New York John F Kennedy Intl
$426Delta
Thu, Dec 3 - Sun, Dec 6
Delta Logo
2:05 pm - 11:53 pmSJU  San Juan Luis Munoz Marin Intl-SAN San Diego
13h 48m2 stops New York John F Kennedy Intl Salt Lake City
Delta Logo
6:42 pm - 1:05 pmSAN  San Diego-SJU San Juan Luis Munoz Marin Intl
14h 23m2 stops Seattle/Tacoma Intl New York John F Kennedy Intl
$426Delta
Fri, Oct 16 - Tue, Oct 20
Southwest Logo
6:00 am - 6:55 pmSJU  San Juan Luis Munoz Marin Intl-SAN San Diego
15h 55m1 stop Tampa
Southwest Logo
6:50 am - 9:50 pmSAN  San Diego-SJU San Juan Luis Munoz Marin Intl
12h 00m2 stops Nashville Intl Orlando
$426Southwest
Thu, Feb 4 - Thu, Feb 18
Southwest Logo
9:05 am - 4:40 pmSJU  San Juan Luis Munoz Marin Intl-SAN San Diego
11h 35m2 stops Orlando Dallas Love Field
Southwest Logo
8:50 am - 10:40 pmSAN  San Diego-SJU San Juan Luis Munoz Marin Intl
9h 50m1 stop Tampa
$426Southwest
Booking Insights

KAYAK's insights & trends for flights to San Diego

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

What is the cheapest month to fly to San Diego?

The cheapest month for flights to San Diego is October, where tickets cost $406 on average for return flights. On the other hand, the most expensive months are July and May, where the average cost of tickets from Puerto Rico is $576 and $566 respectively. For one-way flights, the best month to travel is December with an average price of $283.

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

To get a below average price, you should book around 3 weeks before departure, which saves you about 29% compared to booking last minute. For the absolute cheapest price, our data suggests you should book 19 weeks before departure.

Good to know

Low season

March

Cheapest flight

$177
Best time to beat the crowds but there is an average 11% increase in price.
Most popular time to fly and prices are also 3% lower on average.
Flight from San Juan to San Diego

FAQs - booking San Diego flights

  • How far is San Diego Airport from central San Diego?

    There are 3 miles between San Diego city center and San Diego Airport.

  • What is the name of San Diego’s airport?

    San Diego is served by San Diego Airport, also commonly referred to as Lindbergh Field, San Diego, or San Diego Intl. The airport code is SAN.

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

    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 to San Diego.

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

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

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

    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 to San Diego 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 to San Diego?

    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 to San Diego up to 3 days before/after your preferred dates. You can then pick the flights that suit you best.

  • How many direct flights to San Diego are there each week?

    Each week there are around 5,741 direct flights from within Puerto Rico to San Diego. The most common day for departures is Sunday, with 17% of flights taking off on this day.

Top tips for finding cheap flights to San Diego

  • Enter your preferred departure airport and travel dates into the search form above to unlock the latest San Diego flight deals.

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

 
Need help choosing which airline to fly with to San Diego? 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
SouthwestOverall score based on 4217 reviews
8.1Boarding
8.6Crew
7.0Food
8.0Comfort
7.5Entertainment
Airline reviews

Seated at front bulkhead for a smidge extra leg room away from home and on flight back home. Away crew was very proactive about assuring our carryons had space close behind us (because no seat in front of us our personal items had to be in a small bin overhead). They actively required passengers place overhead luggage on its side so more items could fit in bins. Home crew made no such efforts. I had to struggle back rows to get overhead bags upon landing, no crew help then either, and some disgruntled passengers as I and others retrieved our bags. There was a system that worked pretty well. The home bound crew just didn't feel like working.

4.0 OkayMather, Aug 2026
Read more Southwest reviews

Seated at front bulkhead for a smidge extra leg room away from home and on flight back home. Away crew was very proactive about assuring our carryons had space close behind us (because no seat in front of us our personal items had to be in a small bin overhead). They actively required passengers place overhead luggage on its side so more items could fit in bins. Home crew made no such efforts. I had to struggle back rows to get overhead bags upon landing, no crew help then either, and some disgruntled passengers as I and others retrieved our bags. There was a system that worked pretty well. The home bound crew just didn't feel like working.

3 hour delay. Had to change plans and was still delayed.

The flight crew was extremely rude and especially not helpful when our flight was delayed.

Delays delays delays. Late taking off, late landing, wait for a gate, etc.

First time traveling on Southwest since bag fees were implemented. Usual good service. Just more expensive now.

Plane late from DC to Austin 30 minutes. Crew made up much of the time enroute to San Diego.

Our first flight was so delayed that we had 10 mins to board the next one. We requested if the flight attendant could allow us off there plane first and they denied our request even though I have seen this done before. Luck was on our side that we didn’t miss our next flight.

Everything was great except for the in-flight wifi that wasn't working.

It was great! The new boeing has much more space and charging ports!

Took a little longer than normal, but the process is clear and easy to understand.

Both of my flights to and from JFK experienced significant delays. Most notably, my first flight was delayed by six hours due to crew members being affected by delays on a previous flight. While I understand that disruptions can occur, Delta’s staffing and operational planning should include sufficient contingency measures to handle situations like this rather than placing the full burden of those delays on customers. Additionally, the $12 meal voucher offered as compensation was inadequate, particularly given the high cost of food and beverages at the airport. Considering the length of the delay and the substantial inconvenience caused, I believe more meaningful compensation would have been appropriate.

Crew was real good, flight was smooth and came in early.

Gate agent rushed to fill hot jetway with crowd so it took over 12 minutes to go from gate to plane. Just like a discount airline Pooly prepared cabin and third time that claim of rough air prevented any cabin service. Friends on a Southwest flight at similar time had service.

Not a "Delta" issue, but a JFK issue: We booked a connecting flight with 3 1/2 hours between to clearn immigration and customs. Our inbound flight (BCN to JFK) was on the taxiway 45 minutes which ate into our layover time. Immigtration was insanely quick with the CBP MPC app; however, clearing TSA (again, after we were ALREADY cleared in Spain on the inbound international flight) took over 95 minutes. This left us with 10 minutes before boarding the connecting flight (JFK to SAN) to walk to the far end of Terminal 4 and try to find food. We didn't find any food that could promise to serve us in under 10 minutes so we boarded the Delta flight after coming off a plance and an 8-hour flight knowing that we wouldn't be served any food on the next 5 1/2 hour flight. I feel like Delta needs to put pressure on the JFK TSA to open more screening stations (by our count, we saw only 5 scanners open and a line of - as we said - over 90 minutes. The insult is that we WERE ALREADY SCREENED through TSA, but as you come off one flight into the USA, you have to go through the whole process again. It seems like if you have a connecting flight, there should be a way to pass through immigration and customs without needing to return through TSA.

Rough day of travel all the way around. Wrong info given to us multiple times and mistakes in their booking making our trip 10 hours longer than planned. I’m bummed because I fly Delta all the time and love them. Mistakes happen. Just bummed that this was a rare trip our whole family was traveling together.

It was good until there was a 3 hour delay because there was not any pilots to fly the plane.

Everything was very good other than I had selected a specific seat when I booked the flight and they changed it once I checked-in the day before my flight. I was still in first class but lost my aisle seat for a window seat. Being tall, the aisle offers more comfort so I always select an aisle seat.

Flight diverted in SD. Later take off in Seattle by 1.3hrs

Was a great smooth flight from Detroit to San Diego.

The boarding process was terrible especially with an indirect flight Chicago to Seattle to San Diego was terrible talking about we overbooked a flight idk if I’d take this airline ever again we got off our flight from Chicago to Seattle and we traveled for business and they told us our connecting flight was over booked and their was no seats asking people to take a delayed next flight and they don’t tell anyone coughing to wear masks seats 30A-B were terrible during the flight no one wants to sit next to people coughing all around I don’t want to be sick traveling for work or get sick anytime it’s very upsetting the staff doesn’t take this stuff serious to tell them to wear masks when they see people coughing and sneezing

The app logs you out right when you are boarding requiring all passwords and reservation number for the flight. Super annoying

The pre-order only approach for fresh food is really challenging

Delayed 2 hours while stuck on the aircraft. If the luggage was properly loaded the first time we probably wouldn’t have been delayed at all

UA594 was delayed multiple times. I ended up getting picked up so I can make it in time for work 6AM on Monday, 7/6/2026

Horrific. They missed my connecting flight to San Diego. I didn’t get there until Monday at 9am when I had a mandatory court settlement conference scheduled at 6am since we had parties on the east coast. This caused many issues. All because United apparently forgot to hold the doors open until my flight landed that only had a 10 minute delay. This was the last flight to Southern California. So I couldn’t even rent a car to finish the trip. United cannot be trusted when traveling on specific days and times since weather didn’t have anything to do with the delays.

Was a pain having to leave the plane and reboard but glad the plane was fixed

Connecting flights were poor,especially in Naples.our Lufthansa air bus was a joke.way too small for that long of a flight.no room at all.couldn’t even get out of the seats to move around or go to the bathrooms.we thought we were getting an actual air bus,double decker.i will never fly that long in a plane like that again.kind of misleading to call it an air bus.we actually had more room on our buses that we used.

For a 22 minute flight all you expect is for it to be safe and comfortable

Lost connnection had to stayON in Chicago Was a mess

Booked economy through United - air canada treated it as standby and was almost refused boarding.

Awful! We boarded and then sat on the plane for 50 mins before having to deplane due to a maintenance issue which should have been addressed before boarding. Then we had to change terminals as there was no other plane for us at the current terminal. Then we waited another 2 and a half hours to board again only to wait for 50 mins on the plane again for the snacks to be brought from the broken plane. And once we were on the flight we still only got the complimentary cookie and soda or water. No food vouchers provided even though we had waited over 3 hours for our flight.

The seat when "flat" was not flat and pad was too thin to cover it.

Delayed for mechanical and no updates on what was happening and how long the delay might be.

We are too tired and frustrated to comment politely at this point

My flight was delayed for several hours. Sitting at gate 16 for several hours, I got a text from Kayak the gate changed to 9 before it was announced. Very bad communication at each gate from American Airlines employees. I received 10 notifications of delay from Kayak. My vacation started off horrible! I will write to American Airlines corporate office also.

The service and food needs to improve to catch up with other international flights

The flight crew was fantastic! Which the seats had a small TV.

also wi-fi never worked attendant said satellite coverage is spotty over water ..... but we were over land!

They attended to my needs as I couldn't walk and they provided a wheelchair for me.q

This time my flight was smooth and uneventful. They started boarding even earlier than it was scheduled. I was pleasantly surprised. Thank you!

A more comfortable seat. Padding would be really helpful but I've read the airlines don't want customers to be satisfied with economy seats.

Everything was good except checking bags . I had paid for two bags but it didn’t show so we had to do it again while people waited and we were struggling to get to our flight

Flight delayed 4 times on a non-stop from BOS to SFO. Then when landed in SFO had to wait for 30 mins for a gate AT 3:30AM.

The security line at JFK was one of the longest I’ve ever experienced - probably 45 minutes. I don’t know if JetBlue has control over it, but it detracted from the overall experience. Entertainment had good options, but the volume control was a bit small to tap on and the screen had a fair amount of interference blips. Clearer picture would have been better.

Whole experience was poor. Delayed 2 hours. Lied about the delays. Was all jet blues fault and tried to blame on air traffic control. Sent out other let trips and wouldn't allow people to switch aircraft.

It was fine for what it was. It’s not luxury travel but it was efficient, for the most part. Having my carry-on transferred into luggage however, was unwelcome.

Great price, easy check in, love the free drinks and snacks, and nice crew. The only negative part was waiting for your seat assignment 5 minutes before boarding, and the seats are a bit uncomfortable.

It took an hour to get my bag after landing. Not exaggerating

Everything was good instead change the gates! I missed my first flight because it was changed the gate and I didn’t know!

almost 4 hour delay as they over booked and had to wait for 8-10 volunteers to agree to travel next day.

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Everything you need to know for your flight to San Diego

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