The muddy limestone in the Lei32 sub-member of the Middle Triassic Leikoupo Formation in the well Chongtan 1 (CT1) of the Sichuan Basin has yielded promising industrial oil and gas production. This discovery has the potential to become a significant strategic reservoir in the future for oil and gas exploration in the Sichuan Basin. However, the understanding of hydrocarbon accumulation in the muddy limestone of the Lei32 sub-member remains insufficient, which poses limitations on further exploration selection and deployment strategies. This study focuses on the analysis of core samples and laboratory data in the wells CT1 and Jianyang 1 (JY1), aiming to investigate the source rock and reservoir characteristics of the muddy limestone in the Lei32 sub-member, as well as the primary controlling factors influencing the development of the source rock and reservoir. The results show that the Lei32 sub-member in the Central Sichuan Basin is an evaporated lagoon deposition; the tight argillaceous limestone and limy mudstone exhibit the characteristic of source–reservoir integration, belonging to a new type of unconventional oil and gas reservoir. The reservoir space of the argillaceous limestone and limy mudstone in the Lei32 sub-member primarily consists of inorganic and organic micro–nanopores and microfractures. The average porosity and permeability are 2.7% and 0.19 mD, indicating a low-porosity and low-permeability unconventional reservoir. The clay minerals and gypsum content are the important factors influencing reservoir porosity, and the fractures are key factors influencing permeability. This study will elucidate the specific features of hydrocarbon accumulation in the muddy limestone reservoirs of the Lei32 sub-member and provide insights into its exploration potential.