Also, when you did AutoVE did you make sure that the MAF is failed and trims are disabled.

Also, btw, increasing the IFR will cause the ECM to fire the injectors for a shorter time.

Did you populate the injector tables with data for the new injectors...?

See what Highlander said above.

+1 what statesman said, when fueling doesn't respond to airmass changes, something is really wrong.