I don't really want to see bizarre mixes, but it wouldn't be terrible.
That's pretty much how I felt; while I'll still generally try to skew each Focus' creatures towards the gods that tended to have that focus as their primary ability (use an Egyptian theme for the Animals focus, Greek for Water focus, etc.), I'd prefer not to rigidly assign them by god. After all, I'm already decoupling your choice of pantheon from your choice of civ, so it's not like I'm adhering to any kind of accuracy as it is.
If I can find something unique to each god, then I can put that into the game in addition to the normal Focus benefits, although again, I'm not sure I CAN find something distinctive for certain pantheons. And this wouldn't invalidate option B above for the weaker Myth units; if having a level 2 Fire church allows you to build Rakshasas (from Hindu mythology), then all six pantheons can unlock them at some point, it'd just be easier for certain god choices.
Also, who would be present in each Pantheon?
Each pantheon consists of four major gods (each with a primary and secondary focus), and nine minor gods (each with a single focus). The remaining four foci would be entirely unavailable to that pantheon. Each pantheon has a primary method for generating Favor and a secondary method (6-7 combinations).
The permutations of these factors explain why the choice in deity matters for those folks who know nothing about mythology (including the AI): each combination has its own strengths and weaknesses, and different strategies for how to expand your pantheon.
While most gods were fairly easy to line up with the foci I'd created, there were a few awkward spots where the need for certain combinations overrode mythological accuracy. I tried to make sure that no two gods had identical Focus combinations, although there are a few "inverted" cases between pantheons (where Hephaestus is Crafts/Fire and Loki is Fire/Crafts).
I'd already posted the full Egyptian set a few posts up, and a page or so back I mentioned the Greek choices (with the full set of 13 consisting of the 12 Olympians, plus Hades). If I remember right, the big four for the others:
Norse: Odin, Thor, Loki, and Frigg
Hindu: Shakti, Brahma, Vishnu, and Shiva (those four are pretty obvious)
Aztec: Huitzilopochtli, Quetzalcoatl, Tlaloc, and Tezcatlipoca
Sumerian: Anu, Enlil, Enki, and Inanna. (I know, Inanna, a.k.a. Ishtar is not as important as the other three, but I couldn't resist including a goddess of beauty/sex who also happens to be the pantheon's goddess of war. And yes, Anu would properly be called Ea since I'm going with the original Sumerian names instead of Akkadian for the rest of the pantheon, but I wanted the names to be a little less confusing, and the number of short "E" names was just getting to be too much.)
In most cases there were three obvious choices for major gods, and my fourth choice was a question of personal preference and the foci of the rest of the pantheon. Take the Greeks; there's no question that Zeus, Poseidon and Hades are the big three, but I added Hephaestus as the fourth because he'd clearly get the Crafts and Fire foci, which no one else overlapped with. If I'd gone with, say, Athena (Knowledge/War) then I'd have had nowhere to put Ares, since he'd be blocked from the War focus. War, Fertility, and Death were really the three most popular specialties for gods in mythology, so it took a bit of work to avoid issues like that.
I can post the minor gods and Favor biases when I get home tonight, but most of the favor settings should be pretty obvious; Aztec and Norse get the most Favor from battles, for instance.
The only question left on the pantheons is the seventh choice. Four options:
1> the Titans (Gaea, Oranos, Kronus, Oceanus as the majors, followed by Prometheus, Hekate, Theia, Rhea, etc.)
2> a more abstract Native American-ish animal-based set (Coyote, Raven, etc.), possibly using the Chinese Zodiac as a base if I can't find a coherent native set.
3> No seventh set at all
4> Something really strange, like a Chthulhu set.
I'm leaning towards #2 just because I don't want two Greek-themed sets and I don't want to sift through Lovecraft, but I haven't plotted out the full set yet so I'm not sure if it's workable. (It's a LOT of work.)