Apple - Disable automatic "overview scan" in Image Capture
If you (remember to) set the scan mode to document feeder, it won't do the overview.
Apple's Image Capture app is intentionally minimalist. It doesn't have significant Preference settings, and no user-friendly way to turn off the overview scan.
In theory, anything in OS X is hackable, given sufficient knowledge and time. In practice, you should consider a 3rd party scanner app instead.