Bilingualism has a profound impact on the structure and function of the brain, but it is not yet well understood how this experience influences brain functional organization. We examine a large sample (151 participants) of monolinguals and bilinguals with varied age of second language acquisition, who underwent resting-state functional magnetic brain imaging. Whole-brain network analyses reveal higher global efficiency in bilingual individuals than monolinguals, indicating enhanced functional integration in the bilingual brain. Moreover, the age at which the second language was acquired correlated with this increased efficiency, suggesting that earlier exposure to a second language has lasting positive effects on brain functional organization. Further investigation using the network-based statistics approach indicates that this effect is primarily driven by heightened functional connectivity between association networks and the cerebellum. These findings show that the timing of bilingual learning experience alters the brain functional organization at both global and local levels.