We simulate numerically the dynamics of strongly correlated bosons in a two-leg ladder subject to a time-dependent energy bias between the two chains. When all atoms are initially in the leg with higher energy, we find a drastic reduction of the interchain particle transfer for slow linear sweeps, in quantitative agreement with recent experiments. This effect is preceded by a rapid broadening of the quasimomentum distribution of atoms, signaling the presence of a bath of low-energy excitations in the chains. We further investigate the scenario of quantum quenches to fixed values of the energy bias. We find that for a large enough density the momentum distribution relaxes to that of an equilibrium thermal state with the same energy.