Flights from Boston to San Juan (Puerto Rico)

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

Here you can compare cheap flights from Boston (BOS) 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
Boston
San Juan (Puerto Rico)
Outbound
12/12/25
1 Stopover (MCO)
NK0891, NK0306
12h 08min
Return
-
Spirit Airlines
$104
Best option
Boston
San Juan (Puerto Rico)
Outbound
02/02/26
direct
NK3013
04h 06min
Return
02/13/26
direct
F93002
04h 23min
Spirit Airlines
$148
Boston
San Juan (Puerto Rico)
Please note: transfer for connecting flight
Outbound
02/13/26
2 Stopovers (DTW, ATL)
NK1363, NK1098, NK1845
35h 47min
Return
02/26/26
2 Stopovers (MCO, DTW)
NK0623, NK3126, NK1364
12h 15min
Spirit Airlines
$469
Boston
San Juan (Puerto Rico)
Outbound
02/02/26
direct
NK3013
04h 06min
Return
02/13/26
direct
F93002
04h 23min
Spirit Airlines ?
$151
Boston
San Juan (Puerto Rico)
Outbound
02/02/26
1 Stopover (ATL)
F93085, F92082
08h 12min
Return
02/13/26
direct
F93002
04h 23min
Frontier Airlines ?
$201
Boston
San Juan (Puerto Rico)
Outbound
02/02/26
direct
B60561
04h 03min
Return
02/13/26
direct
B61462
04h 13min
JetBlue Airways ?
$213
Boston
San Juan (Puerto Rico)
Outbound
04/03/26
direct
B60161
04h 02min
Return
04/16/26
1 Stopover (JFK)
B62404, B61118
07h 34min
JetBlue Airways ?
$251
Boston
San Juan (Puerto Rico)
Outbound
11/24/25
1 Stopover (FLL)
NK0126, NK0339
13h 42min
Return
12/08/25
1 Stopover (JFK)
B62004, B60418
11h 00min
Spirit Airlines ?
$266
found 3 days ago
Boston
San Juan (Puerto Rico)
Outbound
11/24/25
1 Stopover (FLL)
NK0126, NK0339
13h 42min
Return
12/08/25
1 Stopover (FLL)
NK3979, NK0363
06h 42min
Spirit Airlines
$268
found 3 days ago
Boston
San Juan (Puerto Rico)
Outbound
11/24/25
1 Stopover (FLL)
NK0126, NK0339
13h 42min
Return
12/08/25
1 Stopover (FLL)
NK3979, NK0363
06h 42min
Spirit Airlines
$270
found 3 days ago
Prices based on recent searches, subject to last-minute changes
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Tips and tricks to help you find cheap flights from Boston to San Juan (Puerto Rico)

Favorite airline: Spirit Airlines
81 % of bookings on this flight route are made with Spirit Airlines, American Airlines and Delta.
Spirit Airlines
43 %
American Airlines
24 %
Delta
14 %
Direct flights are more expensive
Compared to direct flights, flights with a stopover on this route are on average 23 % cheaper.
non stop flight
1 stop
2 stops
04h 05min
16h 07min
20h 26min
255 $US
207 $US
830 $US
The favorite connection is non-stop
Flights from Boston to San Juan (Puerto Rico) are most often booked as a direct flight.
Route
bookings
Direct flights
04h 05min, from 255 $US
54 %
1 stopover Charlotte Douglas International Airport, NC
06h 42min, from 502 $US
23 %
1 stopover Orlando International Airport, FL
16h 07min, from 207 $US
12 %

Important flight information

Flight information: Boston - San Juan (Puerto Rico)

Cheapest outbound flight from 103,97 $US
Roundtrip from 147,97 $US
Flight duration min. 03:54 / max. 04:02
Return flight duration min. 04:07/ max. 04:12
Distance 2705 km
Flights per week 16
Departure airport Airport Boston Logan International Airport, MA (BOS)
Arrival airport Airport San Juan - Luis Muñoz Marín International Airport (SJU)
Destination country Flights to Puerto Rico
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