I'm not sure why Solidworks' top view comes out the front view in other programs. I used to have this issue when I was using Surfcam. I did edit the views in Solidworks once, to get then to match the views of Surfcam. You shouldn't need to do this IMHO.
Having said that, it shouldn't matter how the part comes in relative to the view. You should be able to make a construction plane wherever you want it. Even if you have to sketch some construction geometry to define your view, i.e., two lines that are perpendicular, one of 'em for Y+ and one for X+.
When I first started with cad/cam, I used to translate geometry around to get it pointed the way I wanted. I work in the golf industry, and one day I got a titanium face cup for a driver to machine. I spent some time rotating and tweaking to get all the inside surfaces reachable relative to Z axis. I get things ready to post, and they tell me the part has changed, and here's your new parasolid. Oops!! No more moving stuff.
Hey, why's it going over there?!!