We report ab initio excited-state dynamics simulations on isolated thymine to investigate the mechanism of intersystem crossing, based on CASSCF potential energy surfaces and the Sharc surface hopping method. We show that even though S 2 → S 1 internal conversion is not described accurately with CASSCF, intersystem crossing can be correctly simulated. Intersystem crossing in thymine occurs from the S 1 ( 1 nπ * ) minimum, via a nearby crossing with T 2 ( 3 ππ * ). The system further relaxes via ultrafast internal conversion in the triplet manifold to the T 1 ( 3 ππ * ) state. The simulations reveal that, once the system is trapped in the 1 nπ * minimum, intersystem crossing might proceed with a time constant of 1 ps. Furthermore, the change of the system's electronic state is accompanied respectively by elongation/shortening of specific bonds, which could thus be used as indicators to identify which state is populated in the dynamics.