[3][4] In 2005, he served as chairman of the committee constituted by the Government of India on the fire in Sabarmati Express at Godhra in the state of Gujarat, that led to 59 deaths.

He also pulled up authorities for not making concerted efforts to preserve clues of the incident, instead choosing to dispose of the damaged portion of the S7 coach 'as scrap'.

[5] He served as an advisor and adjunct professor at the Rajiv Gandhi School of Intellectual Property Law of the Indian Institute of Technology Kharagpur.

On Feb 11, 2005, Raghavan wrote in his column in The Hindu [2] "The controversy surrounding the Banerjee Committee report on the Godhra incident highlights the need to develop high-quality scientific institutions that could help the judiciary arrive at the truth.

Banerjee's report on the Godhra train tragedy of 2002 is proof that many elements in our public life will not hesitate to exploit the deaths of innocent citizens to their advantage.

However, even as a special court in Ahmedabad on February 23, 2011 accepted the Nanavati Commission report regarding the Godhra train burning that it was a well planned conspiracy to kill Hindus returning from Ayodhya, Banerjee told the press that he stood by his inquiry's conclusions "200%".