I have always received 40 TPs per sector for travelling JAL domestic business class (which is marketed as “J Class” even though it covers a multitude of fare buckets).

(I should add that - unless you’re connecting in NRT or desperate for the TPs - you’d be mad to take a train out to Narita from Tokyo, fly to Itami, and then connect to Kyoto (presumably by airport bus). Shinkansen is the logical choice here.)