When I did the dyno test I ran mine just like that, without any port matching, and on the dyno mule it made the same power as the standard FE Performer RPM. By the way, when you scribed it did you have a gasket in place? The bottom of the port will raise somewhat if you have the gasket installed. You can also get a 0.125" thick 351C 4V gasket, which will raise it a little more.
If you're going to port match it, I'd be most concerned with matching up the roof of the port. So maybe leave the sides alone, but port into the manifold so the roof of the manifold matches the roof of the adapter.