It was moved once again in 1960, this time to the south bank of the Pasig River within the Bureau of Animal Industry compound (now Presidential Security Group Compound in Malacañang Park) in order to give way for the widening of Nagtahan Bridge. It was then restored under the supervision of National Artist for Architecture, Juan Nakpil. In 1968, the shrine was declared as a national shrine under the administration of National Historical Commission of the Philippines, pursuant to Proclamation No. 324 signed by President Ferdinand Marcos. In April 2007, the Metropolitan Manila Development Authority proposed that the Mabini Shrine be relocated to another site, as part of a project to widen the Pasig River. Dante G. Guevarra, President of the Polytechnic University of the Philippines (PUP), proposed in 2007 to have the house moved inside the main campus of his university. PUP allocated of land for the shrine and officially renamed its campus as the PUP Mabini Campus. There was a proposal to move the house inside the Arroceros Park, a plan which had the support of Manila Mayor Alfredo Lim.
