Is the JR Pass worth it for my itinerary?

Hi Ann,

I made a little list of ticket prices to see if it would be worth it,

Tokyo -> Matsumoto ¥ 6,710
Takayama -> Kyoto ¥ 13,750
Kyoto --> Osaka (to access Koya) ¥ 540
Osaka --> Tokyo ¥ 13,220
Tokyo --> Narita Airport ¥ 2,940

This adds up to ¥ 37,160, the 7 Day JR Pass is ¥ 28,300, so you would save ¥ 8,860.
There are a couple of places to visit Fuji, most people visit the Fuji-five-lake area, which is best reached from Tokyo. Wikitravel has a great guide on how to visit Fuji.

Hope this helps,
Daniel