In the boundary element method (BEM), the Galerkin weighting technique allows to obtain numerical solutions of a boundary integral equation (BIE), giving the Galerkin boundary element method (GBEM). In three-dimensional (3D) spatial domains, the nested double surface integration of GBEM leads to a significantly larger computational time for assembling the linear system than with the standard collocation method. In practice, the computational time is roughly an order of magnitude larger, thus limiting the use of GBEM in 3D engineering problems. The standard approach for reducing the computational time of the linear system assembling is to skip integrations whenever possible. In this work, a modified assembling algorithm for the element matrices in GBEM is proposed for solving integral kernels that depend on the exterior unit normal. This algorithm is based on kernels symmetries at the element level and not on the flow nor in the mesh. It is applied to a BIE that models external creeping flows around 3D closed bodies using second-order kernels, and it is implemented using OpenMP. For these BIEs, the modified algorithm is on average 32% faster than the original one.