I am arriving Kanzai airport 7 May, 6.30am and drop luggage in Kyoto, Shimogya-ku at 11am. Please advise what sort of passes to buy for my itinerary
7 May - Kanzai airport - Kyoto station. Maybe going to Himeji castle after that and Osaka, then back to Kyoto (4 nites)
8 May - Kyoto - USJ/osaka - Kyoto
9-10 May Kyoto city tour
11 May Kyoto - Toyama (4nites)
15 May - Alpine route - Nagano - Tokyo (4nites)
16 May - Tokyo - Hakone - Tokyo
17-18 May - tokyo city tour
19 May - Narita airport
There is no real JR Pass that can help you with your whole itinerary. A few regional passes might help though. If you are going to Himeji, a one day Kansai Area Pass can help you.
The Icoca & Haruka discount ticket might help to get in from KIX and around Kansai.
You might consider a Takayama-Hokuriku Area Tourist Pass to get you up to Toyama. You don't say why you'd spend 4 nights there - the highlights of the area are Kanazawa and Shirakawago.
It depends on where you will go.
There is also the Tateyama Kurobe Option Ticket for the Alpine Route as well.
Likewise you can use a Hakone Free Pass for Hakone.
The Hakone Loop Course
is a common way to see the area and takes a full day.
And the cheapest way to Narita is the 1000 yen bus.
OK, well it's all up to your interests. Kanazawa as I said is a nice place and has Kenrokuen, which is Japan's best historical landscape garden. If you are going to Shirakawago, the Takayama-Hokuriku Pass looks even more attractive since it covers the pricey bus that goes there. Other areas you might consider are Takayama, or even the Noto Pensinsula (though a rental car is the ideal way to go around).