Single ions held in linear Paul traps are promising candidates for a future quantum computer. Here, we discuss a two-layer microstructured segmented linear ion trap. The radial and axial potentials are obtained from numeric field simulations and the geometry of the trap is optimized. As the trap electrodes are segmented in the axial direction, the trap allows the transport of ions between different spatial regions. Starting with realistic numerically obtained axial potentials, we optimize the transport of an ion such that the motional degrees of freedom are not excited, even though the transport speed far exceeds the adiabatic regime. In our optimization we achieve a transport within roughly two oscillation periods in the axial trap potential compared to typical adiabatic transports that take of the order 10 2 oscillations. Furthermore heating due to quantum mechanical effects is estimated and suppression strategies are proposed.