Here is the honest truth about travelling to Tokyo with children: you will have a harder time dragging them away from things than finding things for them to do. This is a city where the vending machines are an activity. Where train stations have jingles that toddlers will hum for months afterwards. Where a trip to a convenience store involves choosing between seventeen flavours of Kit Kat and a rice ball shaped like a panda. Tokyo doesn't just tolerate kids. It seems to have been designed by someone who never quite grew out of being one.
The real challenge is pacing. Tokyo is enormous, and the temptation is to cram everything in. Don't. Pick a neighbourhood each day, move slowly, and leave room for the capsule toy machines. Those little gashapon pods tucked into every arcade and shopping street will eat thirty minutes before you even notice. And your kid will be happier with the ¥300 Pokémon figurine they found in Akihabara than with any carefully planned cultural excursion.
Most art museums are a hard sell for children. You spend the whole time whispering "don't touch that" while they stare at their shoes. teamLab flips that completely on its head. These are spaces where touching is the point, where running around changes the art, and where getting your feet wet is part of the deal.