8 Days Japan Trip - JR Pass /itinerary suggestion needed

Greetings,

We have planned 8-Days Japan trip.
By Looking at Rail-network , it's easy to get lost in the wide network. Can you please help us in getting right pass/ itinerary selection.
I saw that there's 1 day and 3 days tokyo metro pass available and 7 days JR pass available. So on which date shall i activate which passes.

Here's Our planned itinerary :
@2nd Nov arrival @ Haneda airport. 2nov @ 4pm - check in at hotel(downtown).
we plan to explore tokyo untill 3rd Nov Night.
we wish(try) to cover - tokyo tower, sky tree, robot restaurant, odaiba city (VR), asa kusa temple, ginza, shinjuku

4th Nov - In morning we plan to go to Fuji Q highland and then return back to tokyo by night.

5th Nov - Tokyo to Nagoya. In Nagoya, we plan to go to port city , Port of Nagoya Public Aquarium. By night return to hotel in Nagoya.

6th Nov -In morning we'll leave from Nagoya to checkin hotel at osaka. then we plan to leave for USJ, osaka and return to hotel at osaka by late evening.

7th Nov - we'll be leaving osaka hotel to visit kyoto and nara and then return to osaka hotel by night.

8th nov - In morning we'll from osaka to hiroshima to visit peace museum after which we plan to reach Nagasaki by night. we have hotel booked in nagasaki for 8th night.

9th - In morning, we plan to go to meusuem and by 4pm leave from nagasaki to Tokyo (Haneda airport).

10th Nov - 8:30 am - depart from Haneda airport.

Thanks in advance for helping us.