While humans require water for life, one-sixth of our species lives without access to safe water. In Africa, the situation is particularly acute because of global warming, the progression of the Sahara desert, civil unrest and poor governance, population growth, migration and poverty. In rural areas, the lack of adequate safe water and sanitary infrastructures leaves millions with doubtful water quality, increasing the harshness of daily life. In this paper, a pilot study was conducted during the wet season on Bolama Island (Guinea-Bissau, West Africa), a UNESCO Man and the Biosphere Reserve. Twenty-eight shallow wells, supplying water to most of the population, were sampled for microbiological, physical and chemical water quality characteristics. A ten-parameter water quality index (WQI) adapted to tropical conditions was applied to compare the different wells. About 79% of the wells showed moderate to heavy fecal contamination. From the surveyed parameters, it was found that chemical contamination was less important, although all samples were acidic, with the pH averaging 5.12±0.08. The WQI was 43±4% (0%-worst; 100%-best quality), showing that the water from the majority of wells was polluted but should be suitable for domestic use after appropriate treatment. At the onset of the wet season, diarrhea represented 11.5% of all medical cases, 92.5% of which were children aged <15. This paper suggests inexpensive steps to reduce the fecal contamination and control the pH in order to increase the potability of the well water and, concomitantly, to raise the living standards of the population in one of the poorest countries of the world.