Melting of crystalline solids (superlattices) of octadecanethiol and octanethiol protected silver clusters has been studied with x-ray powder diffraction (XRD), differential scanning calorimetry (DSC), and infrared (IR) spectroscopy. These solids have been compared with the silver thiolate layered compounds in view of their similarity in alkyl chain packing and x-ray diffraction patterns. Superlattice melting is manifested in XRD around 400 K as the complete disappearance of all the low angle reflections; only bulk silver reflections due to the cluster cores are seen at 423 K. The superlattice structure is regained upon cooling from a temperature close to its melting point. However, cooling from a higher temperature of 473 K does not regain the superlattice order, whereas thiolate melting is repeatedly reversible even at these temperatures. Transmission electron microscopy suggests aggregation of clusters during heating/cooling cycles. DSC shows two distinct transitions, first corresponding to alkyl chain melting and the second corresponding to superlattice melting. Only alkyl chain melting is observed in variable temperature IR and increased order is manifested upon repeated heating/cooling cycles. Alkyl chain assembly shows strong interchain coupling leading to factor group splitting in cluster superlattices upon annealing. In thiolates only one melting feature is seen in DSC and it produces gauche defects, whereas significant increase in defect structures is not seen in superlattices. Repeated heating/cooling cycles increase interchain interactions within a cluster and the superlattice order collapses.