The invention discloses a method for accurately positioning soil contamination based on geophysical exploration and an accurate estimation method. The method for accurately positioning soil contamination includes the following steps: on-site surveying, rapid exploration which covers entire site from the width perspective, further contamination body and availability positioning from the depth perspective, drilling sampling and analysis verification from specific point perspective, and accurate contamination level evaluation from the width perspective. In specific target sites or regions, the method herein adopts geophysical exploration technology which combines electromagnetic instruments, high density resistivity meters and ground penetrating radars in a step-by-step and targeted manner, can accurately position areas or points that are suspected to have soil contamination, arranges sapling points in a scientific manner, combines rapid site contamination pollution screening as well as drilling sampling, test and analysis, and establishes an entire set of soil pollution investigation procedures from the width perspective, the depth perspective and the specified point perspective. Themethod herein can rapidly and accurately position soil contamination, scientifically arrange sampling points, conducts soil contamination investigation that cover an entire region, and increases theprecision in estimating the contamination area.