Camera position may not matter if your FOV is symmetric (won't work if you have an OAG prism in the light path, etc.) Any dust bunnies will typically be very close to the sensor and quite possibly inside the camera. It's worth a try...
Dunk: you can't just point the scope anywhere and expect to get even illumination. From the ACP manual:
Quote:
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AutoFlat.vbs acquires sky flats using the minimum gradient position in the sky. This position is on the solar circle near the zenith, offset in the anti-solar direction by 15 degrees. This is close enough for most uses, including precision photometry. For more information and the theory behind this selection, see The Flat Sky: Calibration and Background Uniformity in Wide-Field Astronomical Images, Chromey & Hasselbacher, PASP 108: 944-949, October 1996.
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Probably pointing close to the antisolar point would be good enough if you're not doing precision photometry
Cheers,
Rick.