Compound-specific stable carbon isotope analysis of phenolic brominated flame retardants (BFRs) and bisphenol A (BPA) has proven informative to discriminate their source and fate apportionment in the environment. However, because these compounds contain highly polar functional groups and exist as complex mixtures in environment matrices, derivatization is a necessary step, which adds additional non-analyte carbon atoms for analyses and may alter the original stable carbon isotope ratio. It is, therefore, imperative to gain an insight into the relationship between the δ(13) C values of the BFRs and BPA derivatives and those of underivatized BFRs and BPA. The δ(13) C values of BFRs and BPA N,O-bis(trimethylsilyl)trifluoroacetamide (BSTFA) derivatives were measured by gas chromatography/combustion/isotope ratio mass spectrometry (GC/C/IRMS). The δ(13) C values of the BSTFA reagent and the standard underivatized BFRs and BPA were determined using elemental analyzer/isotope ratio mass spectrometry (EA/IRMS). The experimentally obtained δ(13) C values for BFRs and BPA derivatives were then compared with the theoretically calculated values. The derivatization process introduces no isotopic fractionation for BFRs and BPA (the average difference between the theoretically calculated and experimentally obtained δ(13) C values was 0.06 ± 0.15‰, within the precision limits of the GC/C/IRMS measurements). Therefore, the δ(13) C values for the original underivatized BFRs and BPA were computed through a mass balance equation. This work offers a novel tool to research the biotic or abiotic transformation processes of BFRs and BPA in the environment and will offer a perspective for the identification of the environmental source and fate of these organic compounds.