International trade of swiftlet nests has affected wild populations of edible-nest swiftlets throughout their range. The white-nest swiftlet Aerodramus fuciphagus of the Andaman and Nicobar Islands lost 80% of its population in the 1990s. Conservation efforts for the species were initiated in 2000, with the active involvement of former nest collectors. To measure the efficacy of protection measures we collected data on the swiftlet, using the nest count method. We monitored annual breeding populations in 28 protected caves on Chalis-ek and one on Interview Island during 2000–2008, and in 168 unprotected caves on Baratang and Interview Islands during February–April 2008. The swiftlet population in protected caves increased by 39%, whereas it declined by 74% in unprotected caves. Nearly 61% of the 152 caves on Baratang Island were abandoned by the swiftlet during 1997–2008. This study highlights the importance of extending protection to the unprotected caves on the Andaman and Nicobar Islands.