To provide a magnetic particle parallel processing apparatus permitting repeated use of a container, and a method of magnetic particle parallel processing permitting repeated use of a container, with which the rate of repeated use of a container is enhanced to thereby achieve a saving in the working space and a saving in the working time. The apparatus comprises: at least one reaction container; a liquid disposal tank; a reagent etc. feeder with at least one flow channel for feeding at least one type of liquid selected from the group consisting of two or more types of solutions and a magnetic particle suspension according to the processing content, at a given amount and at a given timing, to the reaction container; and a magnetic separator which has at least one processing nozzle with a distal end insertable into the reaction container and the liquid disposal tank, for sucking and discharging a liquid through the distal end, and which also has a magnetic means capable of applying a magnetic field to the interior of the distal end to thereby attract magnetic particles contained in the liquid inside the distal end to the inner wall thereof to effect separation of the magnetic particles, and canceling the magnetic field to thereby release the attracted magnetic particles and re-suspend the same in a liquid.