Two Schiff base complexes [Cu(L)2] (1) and [Zn(L)2]·3H2O(2) of (E)-4-fluoro-2-((3-morpholino propylimino)methyl)phenol (HL) have been synthesized and characterized by elemental analysis and single-crystal X-ray diffraction. Crystal data for 1: triclinic, space group Pī with a=4.8000(10), b=11.109(2), c=13.921(3),α=66.55(3),β=80.35(3),γ=81.09(3)°, V=668.2(2)3 , Z=1, Dc=1.477g/cm 3 , F(000)=311, and the final R=0.0744 and wR=0.1601 for 2301 observed reflections with I > 2σ(I). And those for 2: monoclinic, space group P21 /c with a=14.789(3), b=11.713(2), c=18.846(4),β=107.85(3)°, V=3107.4(11)3 , Z=4, D c=1.389 g/cm 3 , F(000)=1368, and the final R=0.0749 and wR=0.1348 for 5423 observed reflections with I > 2σ(I). Both 1 and 2 are four-coordinated complexes, with a square-planar geometry of copper(Ⅱ) in 1 and a slightly distorted tetrahedral geometry of zinc(Ⅱ) in 2. An asymmetric unit consists of only one half of a Cu ion and one L ligand in 1, while an asymmetric unit is composed of one Zn ion, two L ligands and three water molecules in 2. Non-classical C-H···O and C-H F hydrogen bonds play important roles in the formation of a 1D chain of 1, but O-H O and O-H N hydrogen bonds play dominant roles in the self-assembly of a 3D network of 2. The antibacterial activities of 1 and 2 against B. subtilis, S. aureus, S. faecalis, P. aeruginosa, E. coli and E. cloacae have been evaluated by MTT method. Two Schiff base complexes [Cu (L) 2] (1) and [Zn (L) 2] · 3H2O (2) of (E) -4-fluoro-2- Crystal data for 1: triclinic, space group Pī with a = 4.8000 (10), b = 11.109 (2), c = 13.921 (3)  , α = 66.55 (3), β = 80.35 (3), γ = 81.09 (3) °, V = 668.2 (2) 3, Z = 1, Dc = 1.477g / cm 3, F , and the final R = 0.0744 and wR = 0.1601 for 2301 observed reflections with I> 2σ (I). And those for 2: monoclinic, space group P21 / c with a = 14.789 (3), b = C = 18.846 4, β = 107.85 (3) °, V = 3107.4 (11) 3, Z = 4, D c = 1.389 g / cm 3, F (000) = 1368, and the final R = 0.0749 and wR = 0.1348 for 5423 observed reflections with I> 2σ (I). Both 1 and 2 are four-coordinated complexes, with a square-planar geometry of copper (II) in 1 and a slightly distorted tetrahedral geometry of zinc ) in 2. An asymmetric unit consists of only one half of a Cu ion and one L ligand in 1, while an asymmetr ic unit is composed of one Zn ion, two L ligands and three water molecules in 2. Non-classical CH ··· O and CH F hydrogen bonds play important roles in the formation of 1D chain of 1, but OH O and OH N hydrogen bonds play dominant roles in the self-assembly of a 3D network of 2. The antibacterial activities of 1 and 2 against B. subtilis, S. aureus, S. faecalis, P. aeruginosa, E. coli and E. cloacae have has evaluated by MTT method.