The LOSSAN Rail Corridor Agency is governed by a board that includes eleven elected representatives from the six counties the train travels through.

As of October 2023[update], the Pacific Surfliner operates ten daily round trips between Los Angeles and San Diego.

1225, passed in 2014, allowed LOSSAN to amend the joint powers agreement and become the sponsor of state-supported intercity passenger rail service in the corridor.

[10] They are also working with Caltrans to assess rail operations from Los Angeles to San Diego to develop better connections, close gaps in the schedule, and optimize the assets of the railroad.

[11] The route is the successor of the San Diegan, a Los Angeles–San Diego service operated since 1938 by the Santa Fe Railway.

In 1988 the service was extended to Santa Barbara to provide the Central Coast with an additional train to Los Angeles, followed in 1995 with one trip a day going all the way to San Luis Obispo.

[15] The Carlsbad Village and Sorrento Valley stops were dropped on October 8, 2018, due to changes with the cross-ticketing arrangement with Coaster.

[17] On September 30, 2022, all rail service between Irvine and Oceanside was suspended due to coastal erosion under the track in San Clemente.

[28][29] In January 2025, LOSSAN was awarded a $27 million federal grant that will fund restoration of the 11th, 12th, and 13th daily round trips, resuming pre-pandemic frequency.

[31] The Pacific Surfliner runs on track owned by several private railroads and public agencies: Carlsbad Poinsettia, Carlsbad Village, Encinitas and Sorrento Valley stations were previously served under the "Rail 2 Rail" reciprocal pass program with Coaster, while Laguna Niguel/Mission Viejo and Orange were served under a similar program with Metrolink.

These Superliners are called flex cars, as they can be used for additional business class or coach seating, depending on the demand.

[32][33] The Surfliner cars were introduced in 2000–02, and were designed specifically to handle the demands of the nation's third-busiest rail line.