I just did the same thing. I'm still putting it together so no numbers yet. I took out all the flaws and blended the intake ports with the seats. Nothing aggressive but there was a big difference between the head and where the seat meet. I also matched the exhaust ports to the gaskets. Again, no numbers yet so I don't know if this was good or bad, we will see. I went with a 12.5 JE and a HC3, +2 TB, and a bigger intake than my pro design. I wish I would took pics.
07 700 SE, HPS 778 Stroker, 14:1 custom piston, HR+5 crank, Web4, HPS Race Port, +2 valves, 58mm TB, MSD, Empire Big Bores, tuned on E-85
06 700 SE, HPS 778 Stroker, 10.75:1 CP piston, HR+5 crank, Web4, HPS ported head, +2 valves, 54mm TB, MSD, Monster big bores
08 700 SE, build in progress