The invention discloses a compound type botanical pesticide and a manufacturing method and application thereof. The compound type botanical pesticide comprises, by weight, 5-35 parts of crofton weed, 1-20 parts of fragrant eupatorium herb, 1-20 parts of lantana camara, 20-35 parts of solvents, 1-5 parts of cosolvents, 1-5 parts of synergistic leveling agents, 0.5-10 parts of stabilizing agents, 0.5-5 parts of surfactants and 20-70 parts of water. The manufacturing method comprises washing clean and grinding the crofton weed, the fragrant eupatorium herb and the lantana camara, respectively placing the crofton weed, the fragrant eupatorium herb and the lantana camara in the solvents, soaking for 5-7 days, and obtaining essential oil extracts of the crofton weed, the fragrant eupatorium herb and the lantana camara, evenly mixing and heating the essential oil extracts, adding the surfactants, the stabilizing agents and the water, and obtaining the compound type botanical pesticide after uniform mixing. The compound type botanical pesticide and the manufacturing method have the advantages that foreign invasive species serve as a main raw material for preparation, effective control of the foreign invasive species is achieved, the harm is turned into a benefit, a pesticidal function is achieved, the problem of pesticide resistance of pests for ordinary pesticides is effectively solved, and environmental pollution is avoided. The compound type botanical pesticide and the manufacturing method have the advantages of being simple in preparation process, practical and convenient simultaneously.