Considerable literature has studied different techniques to improve the thermal performance of latent heat thermal energy systems (LHTES) that utilize phase change materials (PCMs). This study aims to contribute to this growing area of research by using honeycomb structure and exploring the effect of heat transfer fluid (HTF) configuration and honeycomb cell angle on the thermal performance of the LHTES during melting and solidification processes. In this work, five cases were designed: case (a) was regarded as reference case; cases (b) and (c) were related to HTF configuration; cases (d) and (e) were used to study the effect of honeycomb cell angle. A numerical study was conducted using ANSYS FLUENT R19.3, followed by experimental validation. In this study, a good agreement is obtained from the validation process. Computational fluid dynamics (CFD) model results show symmetrical melting and solidification behavior when using a honeycomb structure. The results of the HTF configuration show a significant effect. For case (c) with a multiple water block, significant melting and solidification enhancements are obtained with 56% and 50%, respectively. Thus, the HTF configuration can improve the thermal performance of the storage. However, considering different honeycomb cell angles show an insignificant effect on the melting and solidification rates.