Flights from San Francisco to San Juan (Puerto Rico)

Our cheapest offers for flights from San Francisco to San Juan (Puerto Rico)

Here you can compare cheap flights from San Francisco (SFO) to San Juan (Puerto Rico) (SJU) for one-way or return trips. The following offers were searched for and found on idealo during the last few days. Or start your own flight search to San Juan (Puerto Rico). Prices and availability may change at any time.

Outbound Return Airlines Shop Baggage Price
San Francisco
San Juan (Puerto Rico)
Outbound
10/18/25
1 Stopover (ATL)
F91448, F92082
12h 46min
Return
11/17/25
1 Stopover (FLL)
B62054, B60577
17h 25min
Frontier Airlines ?
$351
Best option
San Francisco
San Juan (Puerto Rico)
Outbound
10/18/25
1 Stopover (IAH)
UA1788, UA0701
10h 28min
Return
11/17/25
1 Stopover (IAD)
UA2024, UA0367
11h 14min
United Airlines ?
$418
San Francisco
San Juan (Puerto Rico)
Pay attention to transfer at connecting flight
Outbound
10/18/25
2 Stopovers (YVR, ATL)
F81847, WS1596, NK0843
34h 57min
Return
11/17/25
2 Stopovers (ATL, MSP)
NK0838, NK1299, SY0395
19h 08min
Flair Airlines, Westjet, Spirit Airlines
$524
San Francisco
San Juan (Puerto Rico)
Outbound
10/18/25
1 Stopover (ORD)
UA2097, UA1996
12h 44min
Return
11/17/25
1 Stopover (IAD)
UA2024, UA0367
11h 14min
United Airlines ?
$416
San Francisco
San Juan (Puerto Rico)
Outbound
10/18/25
1 Stopover (ORD)
AA2761, AA2852
10h 58min
Return
11/17/25
1 Stopover (MIA)
AA1870, AA1557
21h 26min
American Airlines ?
$435
San Francisco
San Juan (Puerto Rico)
Outbound
10/18/25
1 Stopover (PHL)
AA3079, AA2433
12h 10min
Return
11/17/25
1 Stopover (ORD)
AA2865, AA2113
10h 55min
American Airlines ?
$555
San Francisco
San Juan (Puerto Rico)
Outbound
09/10/25
2 Stopovers (MCO, FLL)
AS0368, NK2203, NK0791
25h 04min
Return
09/15/25
1 Stopover (MCO)
NK1805, AS0369
19h 25min
Alaska Airlines, Spirit Airlines ?
$583
San Francisco
San Juan (Puerto Rico)
Outbound
09/10/25
3 Stopovers (SAN, ATL, PHL)
AS0912, AS0737, F93210, F94462
37h 13min
Return
09/15/25
3 Stopovers (TPA, PHL, SEA)
F92215, F92340, AS0446, AS1112
32h 44min
Alaska Airlines, Frontier Airlines ?
$610
San Francisco
San Juan (Puerto Rico)
Outbound
09/10/25
1 Stopover (JFK)
B60616, B60803
16h 53min
Return
09/15/25
1 Stopover (FLL)
B61454, B60377
31h 14min
JetBlue Airways ?
$735
San Francisco
San Juan (Puerto Rico)
Outbound
09/10/25
1 Stopover (CLT)
AA2410, AA0783
12h 07min
Return
09/15/25
2 Stopovers (MIA, CLT)
AA0967, AA0361, AA2428
19h 25min
American Airlines ?
$884
Prices based on recent searches, subject to last-minute changes
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Tips and tricks to help you find cheap flights from San Francisco to San Juan (Puerto Rico)

Favorite airline: American Airlines
Flight tickets on the route San Francisco – San Juan (Puerto Rico) are most frequently booked with American Airlines.
American Airlines
60 %
Flair Airlines
20 %
United Airlines
20 %
Favourite connection: via Charlotte
The most popular route is via Charlotte and is booked by 62 % of all travelers.
Route
bookings
1 stopover Charlotte Douglas International Airport, NC
11h 40min, from $ 650
62 %
1 stopover Houston - George Bush Intercontinental Airport, TX
11h 47min, from $ 740
25 %
2 stopovers Los Angeles International Airport, CA Dallas-Fort Worth International Airport, T
20h 12min, from $ 611
12 %

Important flight information

Flight information: San Francisco - San Juan (Puerto Rico)

Roundtrip from $ 350,74
Distance 5841 km
Departure airport Airport San Francisco International Airport, CA (SFO)
Arrival airport Airport San Juan - Luis Muñoz Marín International Airport (SJU)
Destination country Flights to Puerto Rico
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