So that's the Trikkonceptz drive cycle. On the EPA drive cycles:
That's the Fiesta SFE, then the stick, then the auto. This is a 6-speed automated manual transmission, something that I hope we see more of. On the EPA cycle the auto beats the stick by a small margin, and it probably has a better top gear for lower RPM interstate cruising. However, a hypermiler can do more engine-off work with a stick.
Trik, it sounds like you need to adjust your shift points and throttle positions a bit. I'll bet if you commuted for a week in each, you'd be able to get about the same mileage in each.