The Honda Fit is available with an automatic transmission and a 5-speed transmission. The auto is better on the freeway because its top gear is significantly taller than the manual transmission's.
The manual can be driven much better around town--up to 50% in some cases. The manual does not have a problem with engine-off coasting, while the automatic might. The fact that you have much more direct control of the manual transmission and can keep it in one specific gear at any load you choose also factors in, as does the fact that the torque converter in most autos does not lock up during a lot of in-town driving.
But yeah, it depends on the exact differences in gearing, plus where and how you drive, and how good you are at using hypermiling techniques.
BTW, most hybrids are harder to hypermile because some of the standard techniques are built in, and because hybrids tend to be very optimized for the particular driving conditions that the engineers think they will see. So when you operate outside of those conditions, you can easily "fall off the curve" of best efficiency.
-soD
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