The invention discloses a method and system for measuring height of a fractured zone and a caving zone and a storage medium. The method comprises the following steps that the distance between a hole position coal seam top plate and a hole, the distance between a fractured zone top point and the hole, and the distance and the mining height between a caving zone top point and the hole are obtained,the height of the fractured zone and the caving zone is calculated according to the distance between the hole position coal seam top plate and the hole, the distance between the fractured zone top point and the hole, and the distance and the mining height between the caving zone top point and the hole, and the calculating formulas comprises the following: the height of the fractured zone = the distance between the hole position coal seam top plate and the hole - the distance between the fractured zone top point and the hole + the mining height x factor, and the height of the caving zone = between the hole position coal seam top plate and the hole - the distance and the mining height between the caving zone top point and the hole + the mining height x factor. By means of the method, the problem of the inaccurate fractured zone and caving zone height calculated by adopting an empirical formula calculating method in the prior art is solved.