Nitrogen (N) and carbon (C) surplus can be used as indicators of an agroecosystems’ ability to maintain soil fertility. Maize is the key crop of intensive forage systems in northern Italy, and large amounts of manure are often supplied to this crop. Different maize-based cropping systems and manure managements were compared in this paper. The following were assessed, using the results of an 11-year experiment: crop production and N uptakes; C and N surpluses; soil C and N contents. The treatments were maize for silage (Ms), maize for grain (Mg), double annual crop rotation maize–Italian ryegrass (Mr), and rotation maize–grass ley (Ml). Five fertilization management systems were adopted: 0N control, and bovine slurry and farmyard manure supplied at two levels, ranging from 215 to 385 kg ha −1 of total N. The dry-matter production of Mr was significantly higher than those of the other systems. The response of maize to fertilization was similar in all the cropping systems, except for Mr, for which the crop showed a high reactivity to N input at both fertilizer levels. Soil reserves were rapidly consumed in the unfertilized treatment of Mr, whereas the high productivity potential of this cropping system was exerted in fertilized plots. The introduction of a ley in rotation with maize reduced the system's DM production, due to the low yield potential of grass compared to that of maize, reduced the system response to fertilization, and diminished the exploitation of organic N at high fertilization rates. Cumulated N surplus caused an enrichment of the soil N pool size: 43% of excess N was retained by the soil. The relationship between the cumulated C surplus and the soil C pool size indicated that 26–27% was retained by the soil. Crop residues of the Mg system were less effective in building up the soil C pool than other C sources. Both slurry and farmyard manure exerted a positive effect on the soil C and N retention. When farmyard manure was used, 18% of C and 45% of surplus N were incorporated into the soil organic matter (SOM). Slurry also built up the SOM content, resulting in 9% of C and 24% of N surplus.