The invention discloses a construction method for waterproofing of an energy-saving self-protection roof and belongs to the technical field of waterproofing of building. The construction method constructs by combining rigid and flexible waterproof materials and comprises the following steps of paving a hydrophobic sloped and heat-insulating layer, prepared from a waterproof agent, cement and heat-insulating light aggregates, on a structural layer of the roof; paving a leveling layer, prepared from the waterproof agent and cement slurry, on the sloped and heat-insulating layer; paving a flexible waterproof layer, prepared from a flexible self-adhesion waterproof roll, on the leveling layer; paving a protection layer, prepared from the waterproof agent and the cement slurry, on the flexible self-adhesion waterproof roll; paving a layer of metal roof acrylic acid high-elasticity waterproof paint on the protection layer, or leveling the protection layer by the waterproof agent and the cement slurry. According to the construction method for the waterproofing of the energy-saving self-protection roof, which is disclosed by the invention, the construction begins treatment of the leveling layer of a base layer, so that each layer is waterproof and is not subjected to water penetration, the waterproofing is permanent through once construction without hidden danger, the problem that leakage points are hard to be found out by the traditional waterproof construction is solved, and meanwhile, the functions of sloping, protection, heat insulation and heat preservation are achieved; the functions that the waterproof effect is permanent if the structure of the base layer is changeless and the likeare also achieved.