Maybe it only matters if you calibrate on a machine at one sampling rate and try to use abject on another...
Does the program expect 44.1 Khz inputs or 48 Khz inputs? Is there a way to toggle, or have it determine the sampling rate automatically? My inputs seem to be consistently upshifted by about 1.08x, which is suspiciously close to 48/44.1=1.088x.