Normalized difference vegetation index (NDVI) has been correlated with various vegetation parameters using different preprocessing methods, corrections and sampling time based on the aim of the study. In yield estimation studies, maximum NDVI value of the season and the same day of the year NDVI value, which are based on chronological sampling time, are used within different techniques from statistical analysis to machine learning. However, analysis of biological systems based on their chronological timing results in an error increase at data extraction phase due to the non-linearity among phenological stages, representing plant development and its variability. In this study, a phenology based optimum NDVI sampling time is determined and proposed as a replacement of chronologically sampled NDVI time for yield estimation analysis. It may not be possible to have or acquire satellite images for the desired NDVI date due to the temporal resolution of existing remote sensing satellites and meteorological limitations. Therefore, a compensation process based on Adaptive Savitzky-Golay filter and using the existing images is proposed to constitute a new NDVI value for the desired day of the season.