There is no limitation for the scale compensate setting in the Maya FBX Plug-in itself.
However, there is a limitation in 3ds Max. If you modify the scale of joints that are parents of other joints in Maya, a conversion is performed that compensates for the scaling behavior that is not found in 3ds Max. This is done by animating the scale of the child joint. This conversion maintains the visual fidelity of Maya animation in 3ds Max.