Development of renewable bio‐based unsaturated polyesters is undergoing a renaissance, typified by the use of itaconate and fumarate monomers. The electron‐deficient C=C bond found on the corresponding polyesters allows convenient post‐polymerisation modification to give a wide range of polymer properties; this is notably effective for the addition of nucleophilic pendants. However, preservation of unsaturated functionality is blighted by two undesirable side‐reactions, branching/crosslinking and C=C isomerisation. Herein, a tentative kinetic study of diethylamine addition to model itaconate and fumarate diesters highlights the significance of undesirable C=C isomerisation. In particular, it shows that reversible isomerisation from itaconate to mesaconate (a poor Michael acceptor) is in direct competition with aza‐Michael addition, where the amine Michael donor acts as an isomerisation catalyst. We postulate that undesired formation of mesaconate is responsible for the long reaction times previously reported for itaconate polyester post‐polymerisation modification. This study illustrates the pressing need to overcome this issue of C=C isomerisation to enhance post‐polymerisation modification of bio‐based unsaturated polyesters. © 2018 Wiley Periodicals, Inc. J. Polym. Sci., Part A: Polym. Chem. 2018, 56, 1935–1945