Multi-Agent System (MAS) is a very active field that ensures global coherence between agents'interactions in a distributed way and implicit global control. Under the awareness of its power, the application of MAS was no more limited to very specific problems, but to almost application area: optimization, neural network, robotics, fuzzy system, etc. In the other side, a complex system of Artificial Neural Network called Flexible Beta Basis Function Neural Tree (FBBFNT) has reached a great level in the prediction search domain. In the purpose of enlarging the application of the algorithm to complex applications of the real problems, a new architecture of MAS was designed and applied to the FBBFNT process. This new multi-agent system based on communications and negotiations allowed the resolution of more complex prediction problems and the acceleration of the global convergence speed.