The main goal of this paper was to know the species diversity of frugivorous flies (Tephritidae and Lonchaeidae) in Ilhéus, Uruçuca and Wenceslau Guimarães, municipalities in southern Bahia. In each sampled place five McPhail traps were used containing 5% corn hydrolyzed protein (Bio Anastrepha(c)), from July 2011 through December 2012. The captured adults were placed in plastic pots containing 70% alcohol, until identification, characterized according to diversity indexes of Shannon-Wiener, Margalef and equitability, and categorized according to the total number of captured flies: 2.24% species of genus Neosilba McAlpine (Lonchaeidae), and 97.76% species of genus Anastrepha Schiner, with 12 species reported, and Ceratitis capitata . The index fly/trap/day (FTD) oscillated from zero to 1.35 with the highest capture in March and April 2012, coinciding with the fructification period. The frugivorous flies captured were Anastrepha antunesi Lima, A. bahiensis Lima, A. consobrina (Loew), A. distincta Greene, A. fraterculus (Wied.), A. grandis (Macquart), A. leptozona Hendel, A. obliqua (Macquart), A. parallela (Wied.), A. serpentina (Wied.), A. sororcula Zucchi, A. zenildae Zucchi, C. capitata (Wied.), Neosilba glaberrima (Wied.) and Neosilba zadolicha McAlpine & Steyskal. Anastrepha fraterculus was the species with the highest index of frequency, dominance, abundance and constancy. It is the first register of A. consobrina in the state of Bahia.