There is something wrong with your tune then, my whippled 3v does not do that. It is not a "ford" thing.
Start by looking at your torque/inverse tables, they are the main fuel controller in a Spanish Oak system.
Copy these tables and this channel log. These 5 parameters will get you a good start, just focus on them and the why. Use a good base tune from a whipple cal, make absolutely certain your injector data is correct, get the MAF dialed in early, don't hammer it and do stupid shit that will kill your engine (like WOT runs when your commanding 32%, you WILL lose an engine). Keep your channels to a minimum, get rid of the gauges they are a distraction from proper logging. I believe typing these in will help you understand why you are doing what you are doing:
Decipha lwfm.png
maf error.png
TA + E.png
IPC.png
inverse load.png
Filter function for this one: [50091.156]>10 AND [50091.156.avg(300)]<20 AND [50091.156.slope(300)]>5 and [50010.242]>140
Don't obsess over IPC error, it will work itself out. Just monitor it, should get smaller with every iteration