Should I Buy a JR Pass or Individual tickets?

Dear JR Pass Team,

Hope having a good day !

Im Traveling End of October to Mid November with my Husband and 4 year old girl. Can you help me to know which will be the best option to buy R Pass or Individual tickets or a Mix based on our itinerary?

Our Itinerary will Be:

Day 1 - Haneda Airport - Tokyo
Day 2 and 3 - Tokyo
Day 4 and 5 - Nikko
Day 6 to 8 - Tokyo
Day 9 and 10 - Hakone
Day 11 and 12 - Kanazawa
Day 13 and 14 - Takayama
day 15 to 17 - Kioto
Day 18 and 19 - Nara
Day 20 to 23 - Osaka
Day 24 - Tokio
Day 25 - Haneda

Also, can you share some tips to travels with kids? I would like to understand what's correct and what's not on public transportation.

Thanks a lot for your help and time

Best regards,

Mayra :)