By driveshaft you mean output shaft of the t-case, right? (same VSS setup that has been used since speedo cables disappeared essentially?)
The engine/transfercase RPM relationship (stock) won't change because of any changes further "downstream" than the VSS obviously, but driveshaft RPM (and thus calculated vehicle speed) in relationship to engine RPM/throttle position would. That's what I'm curious about.
As a for instance, you go from say a 3.42 donor drivetrain to a 4.56 geared rear, the PCM (through the VSS) is going to interpret that since the driveshaft RPM increases, (for a given MPH) vehicle speed must surely have increased as well. Exactly the same reason a cable drive speedometer is off once a gear or tire size change has taken place.
But how much of a factor is actual vehicle speed in shifting the "E" trans, compared to things such as throttle input and engine load?