Complex distributed systems are of more significance nowadays, due to a broader range of its use and because of provision of better services to users. It is clear, that system health needs continuous monitoring, while running software apps that are ensuring the implementation of the business processes, working with Big Data, etc. In the course of this study a monitoring system has been developed. It meets all modern requirements, such as scalability, flexibility, comprehensiveness of necessary data and ease of use. In order to identify unified problems in development of monitoring systems for complex distributed systems and respectively -The solutions for their elimination, the data regarding IT-Architecture most common types used in modern companies, related to fault-points of business apps has been gathered and analysed. All of identified problems and optimal solutions to eliminate them were aggregated in line with the three development stages of monitoring system, such as: development of servicing model for system-of-interest, implementing tools to detect objects of monitoring, generating a health map of system-of-interest. In order to develop monitoring systems for complex distributed systems taking into account the architecture of these systems, all of the gathered data was analysed, and we articulated all problems and optimal solutions for their elimination as well.