Hi Tim, I see the Y right thing fail from both Maya and Cinema 4D, (working in Y-Up) the Z Up change happens fine but all my meshes end up Y Forward. Unticking the convert button leaves me with X Forward but Z Up 
A lot of this is been reported on the Answer hub FBX thread which is now pretty messy, is there any chance of an update on how all the various rotations will be dealt with in the future, I don’t even mind manually choosing where my file came from and target rotations etc.