In this work, we develop a performance-based design of model-based observes and statistical-based decision mechanisms for achieving fault estimation and fault isolation in systems affected by unknown inputs and stochastic noises. First, through semidefinite programming, we design the observers considering different estimation performance indices as the covariance of the estimation errors, the fault tracking delays and the degree of decoupling from unknown inputs and from faults in other channels. Second, we perform a co-design of the observers and decision mechanisms for satisfying certain trade-off between different isolation performance indices: the false isolation rates, the isolation times and the minimum size of the isolable faults. Finally, we extend these results to a scheme based on a bank of observers for the case where multiple faults affect the system and isolability conditions are not verified. To show the effectiveness of the results, we apply these design strategies to a well-known benchmark of wind turbines which considers multiple faults and has explicit requirements over isolation times and false isolation rates
