Experimental evaluations about the impact of anchors of small vessels have previously shown that each anchoring can on average damage up to six shoots of Posidonia oceanica, removing small amount of biomass and, at the same time, interrupting continuity among shoots. The aim of the paper was to investigate the response of P. oceanica to different damage intensity at two levels of substrata compactness. Three treatments were considered: control (no damage); low damage (simulated anchor damage by three strokes of a hoe); and high damage (six strokes). Disturbance was higher where the substratum was highly penetrable and after one year significant variation was observed among treatments for both the number of leaves per shoot and shoot density. Conversely, the number of leaves per shoot by the end of the study was similar among all treatment combinations, suggesting that this was the only phenological feature that recovered, and probably the only result that through clonal integration could be achieved. These data strongly highlighted the role that anchoring might have on the slow growing seagrass P. oceanica meadow.