The invention discloses an organic silicon pouring sealant which comprises two components including a component A and a component B. The component A comprises vinyl, methyl vinyl MQ resin, a reinforcing filler and a catalyst. The component B comprises vinyl silicone oil, methyl vinyl MQ resin, hydrogen-containing silicone oil, a flame retardant, a silane coupling agent and a polymerization inhibitor. The preparation method comprises the following steps of: adding vinyl silicone oil, methyl vinyl MQ resin and a catalyst into a reaction kettle, dispersing at a low speed, adding a reinforcing filler, dispersing at a high speed, and defoaming in vacuum to obtain a component A; and adding vinyl silicone oil, methyl vinyl MQ resin and a polymerization inhibitor into a reaction kettle, dispersing at a low speed, adding hydrogen-containing silicone oil and a silane coupling agent, dispersing at a low speed, adding a flame retardant, dispersing at a high speed, and defoaming in vacuum to obtain a component B; The comparative tracking coefficient (CTI) of the organic silicon pouring sealant is larger than or equal to 600V, and the organic silicon pouring sealant is free of oil leakage, excellent in flame retardant property, small in viscosity and easy to pour.