This study is aimed to investigate the effect of carbon nanotubes on the properties of lightweight aggregate concrete containing expanded glass and silica aerogel. Combinations of expanded glass (55%) and hydrophobic silica aerogel particles (45%) were used as lightweight aggregates. Carbon nanotubes were sonicated in the water with polycarboxylate superplasticizer by ultrasonication energy for 3 min. Study results show that incorporating multi-wall carbon nanotubes significantly influences the compressive strength and microstructural performance of aerogel based lightweight concrete. The addition of carbon nanotubes gained almost 41% improvement in compressive strength. SEM image of lightweight concrete shows a homogeneous dispersal of carbon nanotubes within the concrete structure. SEM image of the composite shows presence of C-S-H gel surrounding the carbon nanotubes, which confirms the cites of nanotubes for the higher growth of C-S-H gel. Besides, agglomeration of carbon nanotubes and the presence of ettringites was observed in the transition zone between the silica aerogel and cementitious materials. Additionally, flowability, water absorption, microscopy, X-ray powder diffraction, and semi-adiabatic calorimetry results were analyzed in this study.