The concentrations of pesticide residues were determined in 2,164 samples of 46 fruits species, collected over a 4-year period. Fruits originated from 59 countries, including Serbia (N = 199). Pesticide residues were determined by the liquid chromatography tandem mass spectrometry (LC-MS/MS) after extraction by a modified QuEChERS protocol. A total of 173 pesticide residues were detected. 62.57% of fruit samples had pesticide residues at or above 0.01 mg/kg, and 4.67% of samples exceeded the maximum residue limits (MRLs) set by the Serbian regulation. MRL values were most often exceeded in pomegranate and citrus fruits (grapefruit and mandarin). Most frequently found pesticide was imazalil (detected in 624 samples, 28.84%) with the highest concentration (93.870 mg/kg) in a grapefruit sample. Multiple pesticides were detected in 50.92% of the fruit samples, and two grapefruit samples contained up to 44 pesticide residues.