The [CTA]-MCM-41 hybrid silica is a useful and simply prepared heterogeneous basic catalyst for the transesterification reaction. Here, the effect of hydrothermal treatment during catalyst preparation was investigated, with the aim of improving the structural stability of this catalyst during the reaction. It was observed that the hydrothermal step led to the formation of a material with a higher degree of organization and a greater wall thickness, which improved its structural stability. However, the catalyst prepared using this treatment presented lower catalytic activity, due to the presence of fewer active sites.