If there was a misfire with your old wires, it probably burned a carbon track into the sides of the plug, which is now causing a misfire with the new wires.
This is what happened on my '95 Contour, and it didn't go away until I replaced both PLUGS AND WIRES at the SAME TIME.
I also discovered that my spark plug socket was dirty and was putting gunk on the spark plug itself which I think may have contributed to the misfiring.