In the engineering of side-slope ecological protection, there is a wide range of plants with different complex factors. It is difficult to take all the factors and their interrelations into account before determining the slope ecological protective species, due to big fuzziness of evaluation factors. Based on the fuzzy mathematics theory and multiple attribute decision-making method, the secondary fuzzy multiple attribute decision-making model for ecological protection species is constructed by means of field test, expert evaluation and a large amount of data. An attempt has been made to establish the model by the four evaluating indicators of stress resistance, functional performance, cultivate characteristics and growth characteristics in view of slope ecological protection effect. Further the four indicators are marked off sub-indexes. The fuzzy mathematics theory is used to evaluate indexes and their correlations for establishing one-level fuzzy multiple attribute decision-making model and then the secondary fuzzy multiple attribute decision making model. The decision-making model is employed to evaluate the slope ecological protection on an expressway in Northern Fujian Province which proves the proposed model effective and easy to operate. The analysis should be considered for the similar ecological protection engineering.