Uninformative biological variability elimination methods were studied in the near-infrared calibration model for predicting the soluble solids content of apples. Four different preprocessing methods, namely, Savitzky-Golay smoothing, multiplicative scatter correction, standard normal variate, and mean normalization, as well as their combinations were conducted on raw Fourier transform near-infrared spectra to eliminate the uninformative biological variability. Subsequently, robust calibration models were established by using partial least squares regression analysis and wavelength selection algorithms. Results indicated that the partial least squares calibration models with characteristic variables selected by CARS method coupled with preprocessing of Savitzky-Golay smoothing and multiplicative scatter correction had a considerable potential for predicting apple soluble solids content regardless of the biological variability.