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The article presents the developed matrix method of simultaneous assessment of the reliability of several variants of complex multi-agent reconfigurable systems, as well as the staged method of reservation, which differ from the known ones in their simplicity and wide scope of application The matrix reliability assessment method consists in a matrix display of the reliability parameters of all agents of a specific variant of a group of system agents and a vector representation of the mission conditions. It is assumed that the mission reliability of a target group of agents is determined solely by the reliability of the agents themselves and the nature of their redundancy. The staged redundancy method is distinguished by its use of traditional standard redundancy schemes as stages in the process of redundant agent groups, significantly increasing the reliability of system variants. System agents are divided into active agents, directly performing the current mission, and passive agents, awaiting activation. Active agents, in turn, are divided into primary and backup agents. Primary agents initiate mission execution, while backup agents, awaiting replacement of failed active agents, can be in either an active state (hot standby) or a cold standby state. Specific mission conditions are taken into account by a vector of correction factors, significantly improving the accuracy of reliability assessment and agent group uptime prediction. An important feature of the proposed methods for assessing and predicting reliability is their analytical nature, which allows the use of modern high-speed computing tools in solving problems of ensuring the required reliability of missions performed by complex multi-agent systems