I have been using an alternative FBX importer with good success rate.
You can download the tool and script at http://blenderfbx.render.jp/
The default fbx importer that comes with blender often could not resolve
rigs, and rotation and scale just get screwed. For fbx you will need to download an extra set of software, follow the installation instruction closely. After installing the software and the addon... importing fbx should be a breeze.
A MORE DETAILED INSTRUCTION by Eric huelin
Here are the handy concise instructions. You will need:
(Remember to check on the correct versions. This is accurate as on Feb 2016)
1 - Visual C++ download here: microsoft.com/en-us/download/details.aspx?id=40784
2 - UmConverter download here: umconv.render.jp
3 - BL_20150704 download here: blenderfbx.render.jp
Install Visual C++. Open the UmConverter zip folder copy into the blender.exe folder. In Blender File>User Preference>Addons tab>[ Install from file ] Select io_scene_bos_fbx.zip Check the box on the right [ ] [ Save as default ]. When importing goto File>Import>Bos FBX – Eric huelin