A novel AMXTC2 ligand was prepared by simultaneous stirring and refluxing of an equimolar mixture of amoxicillin and thiophene-2-carbaldehyde in methanol and was further used to synthesize metal complexes by metalation with cobalt and cadmium salts, taking ligand metal ratio 2:1. They were characterized by elemental microanalysis, FT-IR, mass, UV-visible, 1H NMR, thermal analysis, magnetic moment and molar conductance measurements. The coordination sites in the ligand were verified by their comparative and extensive spectral studies. The detailed exploration of the data suggested octahedral geometry for Co-AMXTC2 and tetrahedral geometry for Cd-AMXTC2 complexes. The thermodynamic and kinetic parameters such as E*, ΔH*, ΔS* and ΔG* of various decomposition steps were calculated from TGA curves using the Coats-Redfern method. The molar conductivity data suggested non-electrolytic nature of the complexes. SEM analysis was done to observe their surface morphology. The geometry optimization of the proposed molecular structure of the complexes was achieved by running MM2 calculation in Gaussian supported Cs-ChemOffice Ultra-11 program software. The biological activities had been evaluated in vitro against E. coli, K. pneumonia, P. vulgaris and S. aureus pathogens in order to assess their antibacterial potency. The biological data revealed better growth inhibitory action of the ligand and metal complexes with bacterial pathogens.