The effects of fruit load, shading, and 9, 10-ketol-octadecadienoic acid (KODA) application on the expression of MdTFL1 and MdFT1 genes were investigated in apples (Malus domestica Borkh.). The expression of MdTFL1 in apical buds from 21 to 63 days after full bloom (DAFB) in plants subjected to heavy crop treatment (HCT) was higher than that in plants subjected to flower thinning treatment (FTT). In contrast, the expression of MdFT1 did not show a clear difference between HCT and FTT. The shading treatment increased the expression of MdTFL1 at 35, 49, and 80 DAFB. However, MdFT1 did not show a clear difference between shading and non-shading treatments. KODA application decreased the expression of MdTFL1 at 49 DAFB, but it did not have a clear effect on the expression of MdFT1 from 21 to 91 DAFB. KODA application did not influence endogenous gibberellic acid (GA) concentrations in apical buds. These results show that KODA may be related to flower bud formation through its influence on MdTFL1. The relationship between KODA and GA with regard to the flower bud formation of apples was also discussed.