I was alerted about this early last week by someone with an interest in a faculty job at an IIT; since then the situation has really got out of hand, with students taking the lead in asking for the removal of the director of IIT-Jodhpur. The main complaint appears to be that a lot of faculty members have been dismissed in the short tenure of the current director, and the most recent such case has sparked a strong protest by students.
IIT-Jodhpur has had a rather turbulent beginning -- the first director (Prof. Prem Kumar Kalra, the man behind the first generation Akash tablets) was sent back abruptly, and replaced by the current director, Prof. C.V.R. Murthy. I don't have any clue about the protests there other than what I have read in the newspapers. I am posting this stuff here in case people with some personal knowledge can share what they know.