The current study aimed to screen glyphosate-alternative weed control methods in three perennial crops in Greece. Field trials were conducted and repeated (2018 to 2019 and 2019 to 2020) in a citrus orchard (Citrus clementina Hort. ex Tan), an olive grove (Olea europaea L.), and a vineyard (Vitis vinifera L.) under the randomized complete block design (nine treatments, four blocks). Glyphosate was applied in the citrus orchard (720 g ae ha−1), the olive grove (720 g ae ha−1), and the vineyard (1,800 g ae ha−1). Pelargonic acid (1,088 g ha−1; two times), barley (Hordeum vulgare L.) residues and white mustard (Sinapis alba L.) residues were evaluated in all sites. Mowing was evaluated in the citrus orchard (one time) and the vineyard (two times). Flazasulfuron (50 g ha−1), oxyfluorfen (144 g ha−1), and flumioxazin (150 g ha−1) were applied in the citrus orchard and the olive grove. Penoxsulam + florasulam (15 + 7.5 g ha−1) was also applied in the olive grove. Cycloxydim (200 g ha−1), quizalofop-p-ethyl (150 g ha−1) and propaquizafop (150 g ha−1) were applied in the vineyard. An untreated control was included in all sites. Flazasulfuron, oxyfluorfen, and flumioxazin resulted in similar normalized difference vegetation index (NDVI) and weed biomass to glyphosate in the citrus orchard in both years and evaluations. Pelargonic acid (two times) and mowing (one time) were effective on broadleaf weeds. Flazasulfuron and penoxsulam + florasulam were the most promising glyphosate-alternative weed control methods against hairy fleabane [Conyza bonariensis (L.) Cronquist] in the olive grove. Cover crop residues showed their suppressive ability as in the citrus orchard. All selective herbicides resulted in similar NDVI and johnsongrass [Sorghum halepense (L.) Pers.] dry weight values in the vineyard in both years. Negative and strong correlations were observed in all sites and years between crop yield and weed dry weight (R2 = 0.543 to 0.924).