On a short break the first and last days each lose half a day to transit, so a hotel within 1 km of a station adds sightseeing time directly. Three nights realistically cover one eastern temple day, one Arashiyama day and a half day for Fushimi Inari or the city centre. Your flight time decides if you reach Kansai Airport in the afternoon or evening, which in turn shapes how much the first-night location matters. An evening arrival favours a hotel within walking distance of Kyoto Station; an early-afternoon arrival suits dropping luggage at a downtown hotel first.
Kyoto Station favours shinkansen, Haruka and bus connections; Shijo favours dinner and the central shopping area; Gion favours early Higashiyama walks. With peak-season bus delays, an evening walking radius matters.
The Haruka limited express from Kansai Airport to Kyoto Station takes about 75 minutes, so an arrival after 3 p.m. usually leaves only dinner near the hotel on day one. Downtown hotels are a few stops from Kyoto Station on the Karasuma subway line, which allows storing luggage before check-in and heading straight to Nishiki Market. On the last day the usual pattern is checkout, luggage storage and a train from the station side, so settle the hotel-to-station route in advance.
Check the room type and maximum occupancy, breakfast, accommodation or bathing taxes, free-cancellation deadline and early check-in or late check-out terms in the product details.