In the present work we study the ultra fast photoisomerization dynamics of intramolecular hydrogen transfer systems. We will show how different schemes for controlled hydrogen switching perform in the presence of dissipation. The hydrogen transfer is modelled in terms of a low dimensional system weakly coupled to a Markovian heat bath. For the energy surface along the reaction co-ordinates we use model potentials with parameters adjusted to (ab initio) data obtained for different molecules (e.g. malonaldehyde derivatives). The dynamics on these potential surfaces is simulated using density matrix theory. Among the control schemes we investigate are the pump-dump approach and different variants of the recently proposed "hydrogen subway" scheme for tunnelling control.