A series of novel discotic liquid crystalline donor–acceptor hybrid heterojunctions were prepared by blending the triphenylene derivative (T5E36) as donor and perylene tetracarboxylic esters as acceptor. Mesophases of blends were characterized by using polarized optical microscopy, differential scanning calorimetry, and X-ray diffraction. Results suggest that all the blends formed liquid crystalline phases, where both compounds in the blends self-assembled separately into columns yet cooperatively contributed to the overall hexagonal or tetragonal columnar mesophase structure. The charge carrier mobilities were characterized using a time-of-flight technique. The phase-separated columnar nanostructures of the donor and acceptor components play an important role in the formation of molecular heterojunctions exhibiting highly efficient ambipolar charge transport, with mobilities on the order of 10⁻³ cm² V⁻¹ s⁻¹. These blends with ambipolar transport properties have great potential for application in non-fullerene organic solar cells, particularly in bulk heterojunction architectures.