The present paper focuses on a simplified method to study the orientation and the anisotropy of two different alkanethiols self-assembled monolayers on gold surfaces. The alkanethiols of interest vary only by their terminal functionalities (COOH and COOCH3), thus allowing one to highlight the influence of these ending chemical groups on the final orientation of the adsorbed molecules. 11-Mercaptoundecanoic acid [HS-(CH2)10-COOH] and the methyl-11-mercaptoundecanoate [HS-(CH2)10-COOCH3] were grafted under adequate conditions to obtain a high grafting density on gold substrates. These latter, before and after the alkanethiol adsorption, were analyzed mainly by the polarization-modulation infrared reflection-absorption spectroscopy (PM-IRRAS) technique to access orientation angles, and by atomic force microscopy (AFM) to check the homogeneity of the grafted layer. By applying an original PM-IRRAS simplified method, the results showed an orientation closer to the normal of the surface plane in the case of the acid thiol compared with the ester one, which is probably because of the lateral hydrogen bonds established between the adjacent COOH functions. This method offers a direct and simple way to quantify the orientation angles in the alkanethiol nanofilms.