Riparian ecosystems as components of stream corridors provide a range of regulating ecosystem services including water production. Water quality, a component of water production is a major concern in urbanized watersheds. Water quality monitoring has been a very common method of investigating watershed impairment particularly in case of human impacts but it is now clear that hydrologic and ecological parameters may support and improve monitoring studies substantially. In three major watersheds of the Istanbul city (Alibeyköy, Sazlidere, and Kaǧithane) we initiated a large-scale study with the objective of evaluating integration, health, and functionality levels of riparian ecosystems. We combined a thorough field survey study with a GIS assessment to reach this objective. A total of 66 sub-watersheds have been selected in the main study watersheds and survey points have been determined at their outlets. All perennial streams in the study have been surveyed for 5 main categories; ecological water quality, water quality for use, riparian integrity, riparian functionality, and riparian habitat potential. We found that a substantial amount of the streams in or close to urban areas had lost their functionality. Furthermore, around 10 percent of all streams in the peri-urban areas had been channelled. Water quality has also been deteriorated in many streams. For example, average NO3-1 concentration at the urban streams was 76.63 mg L-1 while it was 2.67 mg L-1 at the forested part of the same watershed.