Biodiesel purity expressed as fatty esters content is one of its most important quality parameters. Although several instrumental methods have been employed, gas chromatography with internal standard calibration has been the most used. Biodiesel is a very complex matrix, therefore finding a suitable internal standard (IS) is not straightforward. EN14103:2003 standard established methyl heptadecanoate (C17:0) as IS. Since this fatty ester is naturally present in some biodiesel feedstock as tallow, that standard was reviewed in 2011, and methyl nonadecanoate (C19:0) became the new IS. In turn, C19:0 produces a peak on the chromatogram that is difficult to resolve from methyl linoeate (C18:2) and metyl linolenate (C18:3) ones. In this paper, a GC-FID method for the determination of the esters content in methyl and ethyl biodiesel from canola and soy oils, using hexadecyl acetate as a new internal standard was validated. EN14103:2003 was used as reference method. Method selectivity, accuracy (t student parameter < 2.18 from both methods), repeatability (0.1 -0.4%), intermediate precision (0.2 -1.8%), and robustness (0.1 -1.6%) were investigated and considered appropriate for the scope.