ORIGINAL: mr_matt
In addition to better resolution you actually get more force at the flap surface if you use 100% of the available travel (+140 to -140 or whatever it is)
You get lower speed though, not a big deal on most surfaces, particularly on flaps
Just a quick observation. The force applied has more to do with the length of the servo arm compared to the length of the control arm, than how much travel is applied. Think of the bicycle example ... on a 10 speed it takes a lot less force to move the wheel if you have a small pedal sprocket driving a very large wheel sprocket. Same principle applies here.
So if you are concerned about torque, find the hole closest to the servo spindle on the servo arm that gets you the required movement of the flaps and you will have maximized servo torque by creating more mechanical leverage. It is multiplicative.
Loss of resolution is not typically a big issue for flaps, as it was pointed out here that people normally set three flap positions and don't look for a lot of granularity in between.
Following this along, if you have an internal flap horn (like a kingcat or a bobcat), you will actually lose servo torque as the mechanical leverage will work against you. The way to overcome this is to set the servo arm to point directly at the control arm when the flaps are fully deployed (see Ultra Bandit Addendums) so the force of the flap works directly against the spindle in a non rotational fashion. Throw now becomes how much servo travel is required to fully retract the flaps. Keep the servo arm as short as possible.
For more information, the formulas for computing servo torque requirements are in the Expermintal Regs ... believe they are AMADoc 520.