Which adults do you consider major? Dumbledore, Quirrel, Snape, and McGonagall seem the definites, with Moody, Tonks, Flitwick, and Bones as second-stringers. That's 1/4 or 3/8, which is majority-male but not absurd.
I do like your second suggestion, though, even if your first is hard to reconcile with canon, and your third is hard to reconcile with MOR!Harry.
You're right, there's nothing absurd, individually, about the mostly-male lead adults, the author's distaste for sports comedy, and having Hermione and McGonagall be far less hubristic than the men.
The author is largely following canon in each of these, except for minimizing Quidditch (for which I, for one, am heartily grateful) and for adding in shipping humor (which I also like). The trouble is the cumulative effect.
I see not the slightest evidence that the author wants Hermione and the other females to come off as narratively second-best to the men.
But ...
This is a new thread to discuss Eliezer Yudkowsky’s Harry Potter and the Methods of Rationality and anything related to it. This thread is intended for discussing chapter 87. The previous thread has passed 500 comments.
There is now a site dedicated to the story at hpmor.com, which is now the place to go to find the authors notes and all sorts of other goodies. AdeleneDawner has kept an archive of Author’s Notes. (This goes up to the notes for chapter 76, and is now not updating. The authors notes from chapter 77 onwards are on hpmor.com.)
The first 5 discussion threads are on the main page under the harry_potter tag. Threads 6 and on (including this one) are in the discussion section using its separate tag system. Also: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17.
Spoiler Warning: this thread is full of spoilers. With few exceptions, spoilers for MOR and canon are fair game to post, without warning or rot13. More specifically: