We discuss the chiral phase diagram in the parameter space of lattice QCD with minimal-doubling fermions, which can be seen as lattice fermions with flavored chemical potential terms. We study strong-coupling lattice QCD with the Karsten-Wilczek formulation, which has one relevant parameter $mu_{3}$ as well as gauge coupling and a mass parameter. We find a nontrivial chiral phase structure with a second-order phase transition between chiral symmetric and broken phases. To capture the whole structure of the phase diagram, we study the related lattice Gross-Neveu model. The result indicates that the chiral phase transition also exists in the weak-coupling region. From these results we speculate on the $mu_{3}$-$g^{2}$ chiral phase diagram in lattice QCD with minimal-doubling fermions, and discuss their application to numerical simulations.