3.46.0 introduced a new variant of lamination theory.  The new theory can calculate the 3d through-laminate material properties.
However, this means that you need to supply information for all directions of material properties (or use orthotropic with transverse isotropy to figure them out).
I suspect you have some material properties set to zero.  Before, they were ignored, but now they're probably resulting in a divide by zero somewhere.
If that isn't the case, please post an elementary example that I can use to debug.
Rob