The decision to hike the fee was taken recently and will be effective from January next year.
The protests, which began yesterday, ended this morning after a meeting between the students and management in which an assurance was given that their demands will be looked into.
IIT-KGP Director Partha Pratim Chakrabarti, Registrar Pradip Pyne, dean of students and a number of other senior officials were not allowed to leave their office by the students who sat at the gate last night.
He said recently they were informed about a 20 per cent hike in the hostel fees.
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The worst affected are the research scholars who get a Rs 25,000 monthly stipend from the elite institution, said the students.
"If the stipend is not increased how can we pay the increased hostel fees? Within that small amount we have to manage our food and other living expenses also," said a PhD student.