To optimize the number and timing of trunk injections for season-long control of apple scab (Venturia inaequalis), we evaluated 1 to 2 and 4 seasonal and cross-seasonal injections of potassium phosphites and synthetic fungicides and quantified residues in leaves and fruit. Phosphites accumulated in the canopy at the highest concentrations, aligned well in time with scab suppression, and gave better leaf scab control of 41.8 to 73.5% than propiconazole (16.9 to 51.5%) or cyprodinil + difenoconazole (5.4 to 17.4%). More injections of phosphites controlled leaf scab better than fewer (23.7% versus 48.2%), and more fungicide injections resulted in 21.9 to 51.1% better leaf scab control than fewer. Leaf scab control with phosphites was only 3.2 to 13.9% better with 4 cross-seasonal compared with 4 seasonal injections, while 1 to 2 seasonal compared with 1 to 2 cross-seasonal injections improved scab control only for 4.2 to 22.1%. On shoots, injected phosphites provided comparable or for 4.4 to 10.5% and 22.3 to 41.4% better scab control than spray standards. On fruit, injected phosphites slightly improved control compared with sprayed phosphites or the sprayed fungicide standard (33.4 to 40.8%). Two seasonal injections of phosphites controlled shoot scab 5.7% better than 9 spray applications. Five sprays of cyprodinil + difenoconazole controlled scab better than their injections. Fruit residues of phosphites reached 2.8 ppm and declined in all treatments except in 2 seasonal injections and phosphite sprays. Cyprodinil and difenoconazole fruit residues reached 0.02 and 0.07 ppm and declined sharply toward the end of the season. These were far below the United States, Codex, and EU MRL-s of 1, 0.8, and 0.5 ppm for difenoconazole, and 1.7, 2, and 1 ppm for cyprodinil, respectively.