The spokesperson, at 11 pm, minutes after the meeting ended said that "all trains are running as planned".
An official however said the changes requested by the states in regard to stoppages will be allowed.
Andhra Pradesh requested that only 22 trains should come to the state, and instead of the planned 71 stoppages it asked for one halt at an intermediary station along with the terminating station.
The report said Jharkhand requested that four trains to the state be dropped, while 20 others have fewer stoppages.
The South Central railway, under which Andhra Pradesh falls, said in a statement late Sunday night that all intra-state movement of passengers within the state of Andhra Pradesh by railways stands restricted.
"All passenger movements where both the boarding and deboarding station for a passenger falls within the state of Andhra Pradesh stands restricted under further advice," it said.
The statement said full fare refunds will be given to passengers who have booked their train journey with an intention to travel within the state.
Earlier on May 21, the railways had cancelled tickets of all passengers of these special trains whose originating and terminating stations fell within Maharashtra after the state government prohibited inter-district travel.
In an order, the railways said all the tickets of the special trains scheduled to run from June 1 in Maharashtra will be automatically cancelled and full refund will be provided to passengers.
It also said that till further notice, intra-state bookings within Maharashtra should not be permitted. This, however, does not mean that trains cannot originate from stations in Maharashtra, a railway spokesperson said. This meant that if a passenger boards a train from Maharashtra, s/he cannot deboard within the state borders.
The Western Railway in a press release said that Chairman Railway Board, VK Yadav has written to Ajoy Mehta - Chief Secretary of Government of Maharashtra, requesting him to issue necessary instructions to the district administrations to organise the compliance to the guidelines of MHA and MOHF for running of special trains from June 1.
"He has mentioned in the letter that as large number of passengers have already booked to travel by these services, it would cause severe inconvenience to the passengers and may also lead to law and order issues at various stations if these trains are cancelled and therefore, it would be desirable to continue the train operations, which have already been announced on May 20 and booking has started on May 21," the release stated.
The Railways has decided to run 200 special passenger trains from June 1 and the first train was scheduled to depart from the Chhatrapati Shivaji Maharaj Terminus in Mumbai for Varanasi at 00:10 am.