In the paper we propose a Brain Architecture which allows developers of a Multi-Agent System (MAS) to integrate various supporting tools. For the purpose of agents' communication and reasoning we make use of Transparent Intesional logic (TIL), or more exactly of its software variant the TIL-Script language. The proposed architecture makes it possible to utilise also the Prolog language as a reasoning tool. Rules and facts are stored in agent's internal knowledge base is designed in a way appropriate both for Prolog and TIL-Script languages. The architecture is an open one so that other tools of reasoning can be easily incorporated.