The fundamental principle of Fourier Transform Infrared (FTIR) spectroscopy is based on the vibration and rotation of atoms, and it has become a universal and widely used spectral methodology for the detection of internal molecular structures in a diverse range of fields. A considerable number of review articles pertaining to the applications of FTIR spectroscopy have been published in recent years. Nevertheless, a comprehensive summary of the application of FTIR spectroscopy in nanoparticles’ (NPs’) green synthesis has yet to be presented. In the present paper, we propose a series of case studies that demonstrate the application of FTIR spectroscopy in the analysis of metal and metal oxide NPs that have been synthesized using green synthesis processes. Furthermore, a summary is presented of the position of functional group bands in FTIR spectra that are responsible for the reduction, capping and stabilization of NPs. In this review, we explore the advantages and limitations of FTIR and propose methodologies for overcoming these challenges. We also present potential solutions for the analysis of complex FTIR spectra. The present summary is intended to serve as a compendium of information for researchers engaged in the field of green synthesis of NPs, utilizing FTIR spectroscopy as a research tool.