In Mozambique, establishment of aquatic weeds has been enhanced through the increased enrichment of water bodies by nutrient runoffs from human and agricultural wastes that lead to an increase in nitrate and phosphate in the water. The aquatic weeds, water hyacinth (Eichhornia crassipes), red water fern ( Azolla microphylla), water lettuce (Pistia stratiotes) and salvinia (Salvinia molesta) were found in most watercourses in Mozambique and are becoming aggressive in some watercourses, especially in the Umbeluzi and Incomati rivers. Farmers and people living along the rivers are aware of the negative impact of the water weeds because the large mats of weeds cause loss of shoreline and navigability along the rivers. Other commonly perceived effects of aquatic invasive plants in Mozambique rivers include: reduced navigable surface area; difficulties for fishermen, which reduces income; increased prevalence of insects and insect-borne disease, and decreased aesthetic value. The methods currently used for the control and management of the aquatic weeds are mechanical and manual control. Both methods are costly, time consuming, and only provide a short-term solution to the problem. The study found that the weevils Neochetina eichhorniae and N. bruchi were effective biological control agents in the study area but their impact is too gradual compared to the aggressive proliferation of water hyacinth. The one year lab-experiment clearly demonstrated that the water lettuce weed had a significant impact on the recruitment of macro-invertebrates to the artificial substrates, and water lettuce contributed to the reduction of oxygen in the water and consequent reduction of macro-invertebrate abundance and diversity. The biodiversity recovered at the same time in the pools containing water lettuce controlled by N. affinis and water lettuce controlled by herbicide, but richness and diversity of macro-invertebrates was higher in the water lettuce controlled by N affinis during the first sampling occasion compared to the water lettuce in pools controlled by herbicide, where macro-invertebrates increased only when DO levels recovered after water lettuce mat decay. The number of taxa recorded in this study is an indication of the significance of macro-invertebrates in an aquatic environment. This therefore emphasizes the need for more research efforts into macrophyte and macro-invertebrate associations in the aquatic system to better understand the implications of habitat modification arising from human activities. It will also enable us to be better equipped with a more appropriate ecological understanding for aquatic resources management.