Marisa's been confirmed to have parents for a very very very long time, now. Unless you mean the relationship, tho IMHO it's somewhat obvious Marisa and her father have had a sort of falling out.
Yes, my emphasis was on the relationship. I spoke too soon on this issue, anyway.
So apparently a Japanese copy of the Necronomicon exists in Gensokyo.
It's written using kanji/hanzi/Chinese characters, but not in a language anyone understands.
It's nice that they're expanding on the human village with some actual named characters. Really, it's been around since the Windows series started and supposedly so important yet the only major named character from there so far was Akyu.
I'm pretty sure it was actually introduced in IN, when you fought Keine. If you look at the prologues for EoSD and PCB, they both talk about there being very few humans in Gensokyo and talk as if most human-youkai interaction occurs across the border. It wasn't until Keine decided to hide the human village that we got the idea that they had a sizable population center in Gensokyo.
Clarste is correct in terms of games. CoLA preceeded IN though, and by the time CoLA was written, there was definitely a sizeable human population in Gensokyo. Technically, "human villages" are indeed mentioned in ESoD and PCB's prologues. But both instances refer to human population outside of Gensokyo.
What's really important, is that you must understand that the Touhou universe didn't leap into the world fully grown with ESoD and Dolls of Pseudo Paradise in August, 2002. Quite the contrary, if you read ESoD documents and "Death of the Honest Men" carefully (admittedly hard to do given the state of their English translations), you'll see that the Touhou universe as we know it didn't exist back then. Gensokyo was just a hidden paradise of youkai, and Reimu kept watch on its border. She went to stop the scarlet mist, because if it spread to the outside, the humans would discover Gensokyo and destroy it. There was no such thing as super magical barrier. The core concept of Gensokyo is there, but the details are all missing.
A Gensokyo surrounded by a powerful border began to take shape with PCB. But the PCB Prologue
Gensoukyou Fuudoki "Record of Land and Customs of Gensokyo", still described a Gensokyo very different from its current form. ZUN would eventually retcon the whole article by saying it has been greatly distorted by years of copying and intentional tampering.
The "Version 1.0" of Touhou universe, with all important features set in stone, was probably formed soon after PCB's release, and was revealed first through CoLA, then through IN, IaMP and Changeability of Strange Dream.
I'd call ESoD and "Death of the Honest Men" pre-Touhou universe, and PCB proto-Touhou universe.