My personal Analysis:
I agree with Site 1 being the best spot of what is known at the moment.
Resources: Fish, Pig, Dye.
Fish is the best shown resource atm cause when worked boosts worker/settler production pretty hard and adds 2
to our science.
Pig gives same worker/settler production boost but only 1
and requires AH tech.
Dye: Gives 1
and 1 extra
with Theatre [tech req = Drama, leads to philosophy and the Liberalism beeline.]
Terrain:A lot of food, not much production.
Since we are Philosophical and not Financial i think we are somewhat 'pushed' towards a Specialist Economy and i see great potential for a Great Person Farm here. The 3 hills are a must to be worked to speed up just about everything, so i reckon Mining is a critical tech to research.
Two forests can be chopped after first culture pop, changing the base yield of that terrain from 2
1
to 2
1
Techs and Building queue:
I've put these together since they are dependent on each other. As i see it, Mining is pretty critical for reasons stated above, however, if a Work Boat is the first production order in the city, followed by worker and/or settler, mining can wait [unless you'd want to know where the copper is to be found.]
If a Worker is the first production order, Mining would definitely be my first choice, but i'm assuming a Workboat as first unit would be more efficient due to lack of Forest and not blocking city growth. So basically, tech choices are what the Prime Faction prioritizes:
-Early religion [Mysticism, Masonry, Polytheism, Monotheism (with Priesthood somewhere to start generating a Great Prophet from the Oracle and Priest specialists from Temples if we missed or chose not to build Stonehenge]
-Economy [Agriculture, Animal Husbandry, Pottery]
-Science [Pottery, Writing]
-Military [Mining, Bronze Working, Hunting, Archery]
Let's not forget there's still a chance that we catch some tech in a goody hut..
Second City:
Since we're Japan, AluminumKnight and his Protectors of Faith have final say on where it's settled.