Aquaculture industry represents a continuously growing sector playing a fundamental role in pursuing United Nation's goals. Increasing sea-surface temperatures, the growth of encrusting species and current cage cleaning practices proved to affect the productivity of commercial species. Here, through a Dynamic Energy Budget application under two different IPCC scenarios, we investigate the long-term effects of Pennaria disticha fragments' on Mytilus galloprovincialis' functional traits as a result of cage cleaning practices. While Climate-Change did not exert a marked effect on mussels' Life-History traits, the simulated effect of cage cleanings highlighted a positive effect on total weight, fecundity and time to commercial size. West-Mediterranean emerged as the most affected sector, with Malta, Montenegro, Morocco, Syria, Tunisia and Turkey between the top-affected countries. These outcomes confirm the reliability of a DEB-approach in projecting at different spatial and temporal scale eco-physiological results, avoiding the limitation of short-term studies and the difficulties of long-term ones.