hmm, neither me, neither resarium have this issue. Was looking over the code trying to figure out from what it could be happening and it might be because of the layering we've worked up on lately:
body
spidertronmk2_entity.graphics_set.animation.layers[1].hr_version.scale = 0.60
mask
spidertronmk2_entity.graphics_set.animation.layers[2].hr_version.scale = 0.60
and now mk3 has a third layer
spidertronmk3_entity.graphics_set.animation.layers[3] for the colored eyes
not to mention the ghost weaver has a 4'th layer for the turret on the head
Do you happen to have any mod that could affect the layers?
since if the layers are modified or reverted it could explain the smaller heads, and if you can a picture would be perfect, as well as a mod list so i can test it with the mods as well.