If you were running an early version of 2.2.0 when you read your pcm changing any Electronic throttle tables as well as many other tables within our software on Fords you MUST disable both the IPC ROM Switch & IPC ROM Enable drop down parameters or you will get a SES light & probably a wrench light not to mention going into reduced power mode.
This will be fixed in the next public update but for now that is the simple fix to this issue.
-Bill