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In principle you shouldn't have to store different calibrations for each resolution. Going from 640x480 to 1280x1024 amounts to changing the binning and region-of-interest settings on the camera, which don't affect its intrinsic calibration. See REP 104 for the gory details.

It's possible that the OpenNI driver doesn't update camera_info correctly when you change the resolution - it's supposed to, but we haven't tested it much. If so, please report a bug.