Mukherjee was strongly opposed to Article 370, seeing it as a threat to national unity. He fought against it inside and outside the parliament with one of the goals of Bharatiya Jana Sangh being its abrogation. He raised his voice strongly against the provision in his Lok Sabha speech on 26 June 1952. He termed the arrangements under the article as Balkanization of India and the three-nation theory of Sheikh Abdullah. The state was granted its own flag along with a prime minister whose permission was required for anyone to enter the state. In opposition to this, Mukherjee once said ""Ek desh mein do Vidhan, do Pradhan aur Do Nishan nahi chalenge"" (A single country can't have two constitutions, two prime ministers, and two national emblems). Bharatiya Jana Sangh along with Hindu Mahasabha and Jammu Praja Parishad launched a massive Satyagraha to get the provisions removed. In his letter to Nehru dated 3 February 1953, he wrote that the issue of accession of Jammu and Kashmir to India should not be allowed to hang fire.