Embarking on this adventure takes some advance planning including downloading offline maps, extensively, and starting your day early enough to avoid the rush hour traffic.
We left the hotel at 6:45 AM for Tokyo Station (from The Westin hotel in Ebisu) in order to redeem our vouchers for a JR Pass, an unlimited JR Train and Shinkasen (bullet trains) ticket. The ticketing office is at the North entrance so follow signs as you weave through the hordes of commuters making their way through the station. You can only purchase a JR Pass outside of the country and you have to physically activate the pass in a local train station at a ticket counter.
We activated our passes and headed toward the Shinkansen for Nagona. This was one of the nicest and cleanest trains we have ever been on with ample leg room, even in economy. Baby had plenty of room to sit on our laps, climb on our legs and fall asleep after exerting all of his energy.