Use Googlemap to get the rough idea of transport. Then use Arukumachikyoto
http://www.arukumachikyoto.jp/index.php?lang=ento search the timetable for each leg. You can use the spot like Toji temple
for the starting point/destination. Out side of Kyoto, use Hypermedia though
it does not cover the bus rides.
1. Chionji Temple: Tezukuri-ichi (Handmade flea market)Note that it is held on 15th only. Walk to Kiyomizugojo, get Keihan
line (train) to Demachiyanagi, and then walk to Chionji.
2. Arashiyama Bamboo GrovesThere are three ways to go:using Hankyu line, subway and JR line and
Kaifuku line. I would walk to Karasuma (Hankyu) station and then take
Hankyu line, transfer at Katsura station and go to Arashiyama (Hankyu)
station.
3. Toji temple flea market (kobo-ichi market)Take subway line from Gojo to Kyoto and then walk. You can take Kintetsu line
from Kyoto to Toji, but it will not save much time.
4. Kamigamo shrine handmade flea MarketTake subway to Kitaoji and bus to Kamigamo shrine.
http://www.goo.gl/mpkbhs5. Kobe Chinatown, Harborlandhttp://www.goo.gl/yK2gTkYou can also go via Hankyu line, but JR is faster by 20 min (but more expensive by 300 yen).
Should I get a bus pass daily, or a train pass (which one?) ? You don't need any type of passes (which are more expensive). If you are flying in/out KIX,
then you might better buy Icoca and Haruka ticket.
https://www.westjr.co.jp/global/en/ticket/icoca-haruka/IC card (in this case, ICOCA card) is very convenient although it
does not save money.