This paper compares the performance of various data processing methods in terms of predictive performance for structured data. This paper also seeks to identify and recommend preprocessing methodologies for tree-based binary classification models, with a focus on eXtreme Gradient Boosting (XGBoost) models. Three data sets of various structures, interactions, and complexity were constructed, which were supplemented by a real-world data set from the Lending Club. We compare several methods for feature selection, categorical handling, and null imputation. Performance is assessed using relative comparisons among the chosen methodologies, including model prediction variability. This paper is presented by the three groups of preprocessing methodologies, with each section consisting of generalized observations. Each observation is accompanied by a recommendation of one or more preferred methodologies. Among feature selection methods, permutation-based feature importance, regularization, and XGBoost's feature importance by weight are not recommended. The correlation coefficient reduction also shows inferior performance. Instead, XGBoost importance by gain shows the most consistency and highest caliber of performance. Categorical featuring encoding methods show greater discrimination in performance among data set structures. While there was no universal "best" method, frequency encoding showed the greatest performance for the most complex data sets (Lending Club), but had the poorest performance for all synthetic (i.e., simpler) data sets. Finally, missing indicator imputation dominated in terms of performance among imputation methods, whereas tree imputation showed extremely poor and highly variable model performance.