OK I've found the problem, 1000 specular on entity, 50 global specular slider, F3 light mapped.
However, if you go back into the editor and scale the objkect up a little then back to its normal size, then run test again the bake you made fixes it, it just breaks again if you bake again.
I have a feeling this is related to the specular issue where baking also breaks animations.
i5, NV960 2GB, 16GB memory, 2x 2TB Hybrid, Win10.
i3 , Intel integrated graphics, 6GB memory, 512GB Generic SATAIII Win8.1.
Intel Celeron (duel Core), Radeon integrated graphics, 4GB memory, 180gB Generic SATAII, WinVista.
Q6600, Intel integrated graphics, 8GB memory, 512GB Generic SATAII, Win7.