An experiment was carried out to assess the influence of three types of substrate on the growth and yield of sweet pepper (Capsicum annuum L.). Plants were grown during three cycles (2005, 2006, and 2007) in coconut coir dust (CC), urea formaldehyde foam (UF), and rice hull (RH) amended with polyacrylamide gel (water absorber). Growth parameters, dry weight (DW) of vegetative and generative parts, intercepted radiation, water uptake, total fruit yield, and quality parameters were analyzed. Plant height, total leaf fresh weight, and stem diameter were higher in CC and lower for the RH substrate, which also showed lower yields and fruit quality. Accumulated dry matter was modeled according to water uptake and substrate using a linear function. Upper and lower limits in water use efficiency, between 2.5 and 5.7 g DW/L, are linked to the irrigation strategies and crop seasons. Light use efficiency (LUE) under different conditions was also determined to predict plant dry matter and a unique value was obtained for the three substrates (LUE = 0.91 g/MJ). Three different irrigation strategies were proposed for each substrate as a function of intercepted radiation and defining an α coefficient (expressed in mm/m2/MJ) that coupled crop and climate components. These crop characterization and prediction tools could help to optimize plant growth and yield for environmentally friendly substrates.