He was a controversial figure during his tenure as Principal of St. Stephen's, with numerous calls for his removal (particularly from alumni, as well as from professors at the institution).
[5] In view of the irreversible spiritual degeneration that churches in India have suffered, he renounced his priesthood in 2016.
In 2015, a researcher in the St. Stephens College alleged Valsan Thampu of covering up sexual abuse and misconduct.
"[6][7][8] Thampu, is also accused of forcing the rape victim to withdraw her complaints by "explaining the legal aspect" to her, and intimidating her.
The facts about this and a host of controversies comprise the substance of Thampu's memoir titled On A Stormy Course (Hachette India, 2017).