We report on selective optimization of different isotopes in an ionization process by means of spectrally broad shaped fs-laser pulses. This is demonstrated for (39,39)K2 and (39,41)K2 by applying evolution strategies in a feedback loop, whereby a surprisingly high enhancement of one isotope versus the other and vice versa is achieved (total factor approximately 140). Information about the dynamics on the involved vibrational states is extracted from the optimal pulse shapes, which provides a new spectroscopical approach of yielding distinct frequency pattern on fs-time scales. The method should, in principle, be feasible for all molecules.