The microphase separation of binary polymer brushes at different tempera tu res is studied via Langevin molecular dynamics simulations. The order-disorder transition (ODT) from a homogeneous state to microphase-separated structures is investigated by analyzing various system properties such as the composition (density) distribution, lateral displacement of chain conformation, vertical center of mass, structure factor, and pair-correlation function. In an attempt to regularize the stripe pattern of microphase domains, the impact of solvent flow on the domain pattern is investigated.