JR pass must reserve before entering Japan. This kind of question, however, has been caused many times over and over again. Read the web info carefully.
http://www.japanrailpass.net/eng/en001.h... 7day pass costs Yen28,300 and standard fare from Kyoto to Tokyo by shinkansen costs Yen13,220 one way if you choose Hikari. In addition the train cost from Narita to Tokyo is covered by the pass valued Yen3,140 one way. You can use some more JR train if necessary during the period as much as you wish.
Consider it well and decide if you use the pass or not. Whether you have certain legal visa whatsoever or not, you can purchase any train ticket in Japan if you pay. Some Shinkansen discount ticket may be available if you speak fluent Japanese in some discount ticket shop on spot base without guarantee.
Regarding luggage, Shinkansen and Narita express train have enough luggage space to carry together. The coin lockers are ... more.
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