A method for controlling a memory apparatus and the associated memory apparatus thereof and the associated controller thereof are provided, where the method includes: reading encoded data of a second set of error correction configuring parameters from a system block, and utilizing an LDPC engine to decode the encoded data to obtain the second set of error correction configuring parameters, where the LDPC engine stores a first set of error correction configuring parameters, and during decoding the encoded data, the LDPC engine performs decoding corresponding to a first LDPC characteristic matrix based on the first set of error correction configuring parameters; and controlling the LDPC engine to perform operations corresponding to a second LDPC characteristic matrix based on the second set of error correction configuring parameters in RAM, in order to make the LDPC engine be equipped with new encoding and decoding capabilities corresponding to the second LDPC characteristic matrix.