Six people, including two home guards and a cleric, died in the clashes in Nuh on Monday
Prohibitory orders have been issued in Nuh and Gurugram districts. Mobile internet services are also suspended.
Social media accounts are being monitored and more arrests will be registered soon, said Kasaragod Police.
The Roman Catholic Diocese of Mananthavady is spread in the districts of Wayanad, Kannur, Malappuram and Nilgiris (Tamil Nadu).
VK Baiju is accused of spreading enmity against a hotel run by a Muslim.
Kerala MPs, Dean Kuriakose and Hibi Eden spent two days visiting relief camps in Manipur.
Since May 3, the ethnic violence in Manipur has taken at least 120 lives.
Earlier, the Kerala Catholic Bishops' Council had urged the Centre to intervene.
The Kerala Catholic Bishops' Council has told the Narendra Modi-led union government to take necessary steps soon.
The CPM general secretary has said communal polarisation has become mainstay for the BJP.