Aeromona hydrophila is a common emerging pathogenic bacterium in natural waters that affects the quality of drinking water, becoming a challenge for the development and innovation of alternative technologies that provide safe water to families in rural communities. The present study evaluated the ability to inactivate natural A. hydrophila from surface waters using a drinking water treatment system at the point of use (POU), based on 2 thermofused polypropylene filters followed by a UV disinfection lamp, installed in houses in two rural communities in Colombia. Experimental results showed that the POU systems removed A. hydrophila with an LRV of 3.6 ± 0.02 in the synthetic waters, and removal values greater than 2 log in tests performed with natural surface waters with detected naturally occurring Aeromonas and quantified in these communities with LRV of 3.25 ± 0.29 and 2.81 ± 0.31 respectively, with a detection limit of 1 CFU/100 mL. The concentrations of E. coli and total coliforms (TC) are also monitored in 54 homes all equipped with the above described POU systems for 12 months, demonstrating that they can safely provide drinking water to families living in rural communities lacking water treatment systems. This methodology can be implemented to other rural or vulnerable communities worldwide due to the effectivity, availability, accessibility and affordability of the elements utilized to design and fabricate the technology.