The invention relates to a non-ionic surface active agent vesicle capable of restoring skin micro-ecology. The vesicle is characterized by comprising the following components by weight percent: 0.1% to 40% of a non-ionic surface active agent, 0.1% to 40% of an active composition for restoring skin micro-ecology, and 1.0% to 60% of water soluble alcohol. The invention also discloses a preparation method of the vesicle. The method comprises the following steps: A, mixing the active composition for restoring skin micro-ecology and the water soluble alcohol, heating to 70 to 80 DEG C, and stirring until the mixture is completely dissolved; B, preparing an non-ionic surface active agent composition; C, mixing the substance obtained from step A and the substance obtained from step B, adding a proper amount of deionized water, performing thermal insulation for 10 minutes at the temperature of 70 to 80 DEG C, cooling, and adding a proper amount of an anti-corrosive agent. The vesicle and the preparation method have the advantages that three types of active substances, namely coconut freeze-dried powder, burdock extract and flaxseed extract, can be simultaneously coated; the normal flora micro-ecology of skin can be restored; the stability of active substances is improved, and the transdermal effect is good.