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The conventional techniques in space mission design put great emphasis on system reliability while the performance is usually quite limited, which can barely meet the highly increasing computation demand from nowadays real-time applications. To solve this problem, a High Performance Fault Tolerant System (HPFTS) architecture for on-board signal processing is presented in this paper. This DSP-based system, with specially designed efficient compare-point mechanism and parallel processing scheme, can dynamically adapt its redundancy level according to varying radiation conditions to archive the best overall performance. The evaluation results show that under a correlation function based benchmark test, the proposed HPFTS prototype can provide a potential of high processing capacity with the promise of required reliability.