Well, first, my stupidity:
Apparently the primary and secondary TPS are interchangeable (Thanks Hans0). I removed the newly installed Primary TPS from the secondary and installed it in the proper place. Put my old secondary TPS back. Adjusted the primary TPS voltage to spec (.60/.72), reset adaptation, turned the bike off then back on, still have the hesitation.
Here's the wild thing. Yesterday I rode about 30 miles with the new primary TPS in place of my secondary TPS, and the bike rode fine with the exception of the hesitation. Crazy...
Phil, my stepper motor looks pretty clean, but I will WD40 it anyhow.
Warp, I did not check the slack, but at this point I am willing to try changing the air in my tires if someone thinks it might work....