ANA has already announced flight cancellations for Monday, October 6 on flights departing HND before 2 p.m. and flights arriving HND before 3 p.m. For international flights departing NRT, ANA has not announced anything specific but mentioning expecting flight cancellations on Monday, October 6.
JAL has also announced cancellations of flights at HND on Monday, October 6. Morning flights and early afternoon flights are cancelled. Again, regarding flights out of NRT JAL is less specific about flight cancellations on Monday, October 6 but expecting flight cancellation at NRT on Monday, October 6.
JR has announced that in Osaka and Nagoya area there will be no train service from the first train in the morning on Monday, October 6 on many lines. Some lines will operate with delay and reduced schedule. However, for Tokyo area JR has announced major delay in service on Monday, October 6 but has not announced stoppage of the service in Tokyo area.