Sustainable development goals (SDGs) 2 (zero hunger), 6 (clean water and sanitation), and 15 (life on land) are related to the human-water-soil nexus. Soil organic carbon and nutrients can be removed and transported to waterways through runoff and drainage. The main goals of this study are to quantify the water quality for irrigation and assess the dissolved organic carbon (DOC) contents in streams in the northern Nile Delta, Egypt. A 4-year water quality monitoring program is accomplished by collecting 35 irrigation and drainage water samples per year from the study area. The measured water quality parameters are as follows: salinity, pH, Na, SAR, Cl, and NO3–N. In addition, the DOC content is accessed. The salinity hazard ranged from moderate, for most irrigation samples, to high and very high for drainage samples. All collected water samples have low to medium sodium hazards. Results indicate that average DOC contents in irrigation canals are 2.32 and 2.93 mg L−1 for the summer and winter, respectively. The respective means of DOC concentration in drainage canals for the summer and winter seasons are around 3.96 and 5.09 mg L−1. This study revealed significant differences in EC, pH, Na, Cl, and SAR, as water quality parameters, between irrigation and drainage canals. Additionally, the studied agroecosystem has seasonal variability in DOC concentration in irrigation and drainage canals between summer and winter. Overall, reusing drainage water for irrigation in the study area requires the selection of suitable crops and site-specific management.