Late fee on gst return

As per Notification No. 35/2020 - Central Tax, dated 03.04.2020, Due Dates for compliances under the GST Laws falling in the period from
March 20, 2020 to June 29, 2020 stands extended to "30th June 2020 ( 30.06.2020 )".

Therefore as per this Notification, Late Fees should not be charged. The portal might not be updated yet. Try after some days. If the problem persists, then contact the GST Helpdesk ( although no use ).