Nonconformities represent a frequently encountered factor in the operation of a company. It is imperative to constantly investigate the causes and sources of irregularities. For this purpose, for nonsatisfaction of the specified requirements, Kaizen management methods and tools can be used, which offer solutions to improve the nonconformity management process. In industry, regardless of the activity field, software applications that deal with and manage nonconformities can be created, depending on the potential or actual severity of the problem. The paper presents a modern tool, designed to manage nonconformities within a company. Entitled Auto-Quality Matrix, the application was developed and tested in a food industry unit whose field of activity is spring water bottling. The application can be constituted in a standardized process, which can work both on material and information flow, contributing to the visualization of the “quality level” of each individual section and its evolution. On the other hand, it helps to identify nonconformities as close as possible to the area that generates them. The results of the study highlight the advantages of using the new tool, while also exposing the conceptual approach that substantiates its design and validation.