A simple and fast method has been developed and validated to measure glyphosate (GLYP) and aminomethylphosphonic acid (AMPA), which were previously derivatized with 9-fluorenylmethylchloroformate (FMOC-Cl), in maize plants using liquid chromatography (LC) coupled to fluorescence (FLD) and electrospray ionization mass spectrometry (ESI-MS) detection. The method has shown to be consistent, reliable, precise, and efficient. Moreover, the limits of detection (LOD) and quantification (LOQ) reached with the proposed method for GLYP and AMPA are lower than the established maximum residue levels (MRLs). The validated method was applied to quantify GLYP and AMPA in genetically modified (GM) maize foliar treated with the herbicide. It has been found that the GLYP dissipation was mainly due to the progressive dilution effect after herbicide treatment. Finally, it was also observed that the GLYP residue dissipation trend in maize shoot (leaves and stem) tissue determined by LC–ESI-MS matched that determined by liquid scintillation.