The magneto-conductance in YBCO grain boundary Josephson junctions, displays fluctuations at low temperatures of mesoscopic origin. The morphology of the junction suggests that transport occurs in narrow channels across the grain boundary line, with a large Thouless energy. Nevertheless the measured fluctuation amplitude decreases quite slowly when increasing the voltage up to values about twenty times the Thouless energy, of the order of the nominal superconducting gap. Our findings show the coexistence of supercurrent and quasiparticle current in the junction conduction even at high nonequilibrium conditions. Model calculations confirm the reduced role of quasiparticle relaxation at temperatures up to 3 Kelvin.