Chandy met the representatives led by Vicar General Eugin J Perira, at his residence at around 7 am.
Church representatives later told reporters they had taken up the apprehensions of the fishermen community with regard to loss of their land and jobs besides difficulties due to dredging which could affect fishing operations.
The church has demanded a special rehabilitation package for about 50,000 fishermen.
The Congress-led UDF government and Gujarat-based Adani Group had on Monday signed the work contract agreement for development of the Rs 7,525-crore Vizhinjam International Deepwater Multipurpose Seaport.