thats how it happens in 3D chordinates, right hand rule, i think its this way usualy so that they Y is coming out and is positive from the front view and up is positive.  its exactly the same way as my new renderer works.  

Edit: the y+ is actualy going backwards in blender so that the X can be on the side that people are used to it on.

there is no fix to this, its the way it should be.

furthur edit:  its done this way on paper also when calculating stuff due to the fact that when you normaly look at the paper for a 2d graph its flat and horizontal with the ground as a projection, to keep consistent with this, when working in 3d and the paper is not imagined as a projection.