Absolutely agree with all this! I think she shot her to free her from the interrogation and ensure she was under no more threat of being any use to John. (There is... also a theory I've seen around that Wake's revenant may now have clung to Pyrrha's gun, and while I remain a little bit skeptic that neither Augustine nor John would notice that kind of thing, we aren't really sure how perceiving unbound spirits works in detail, and there was emphasis on how the murder weapon would have a strong thanergetic link... 👀 It's not a theory I deeply expect, but I can definitely see it!)
Another factor that's SO important when looking at Wake is that the most we ever see of her comes through those notes (manifested probably subconsciously by her angry revenant), during the River battle (where obviously she's fighting her enemies), and the interrogation scene, and in the last one, she's talking to John. She's pure vitriol and trying to sound as obstinate and seething as possible because she's talking to John, and later Augustine and Mercy. Emphasizing how she didn't give a shit about that baby and called it Bomb is for them, she wants them to be horrified, she wants them to be upset. She doesn't know Gideon is eavesdropping, and it probably wouldn't make a difference if she did, because the mission (almost) always came first, but we don't know if she might have felt differently under all that.
And I mean, I absolutely don't think she felt an ounce of affection for that fetus, and whether there was any guilt at all or just bitterness at having to do it like this is a very open question, but revenants do have the ability to be aware of the world around them. Pal didn't because he was splitting his consciousness a million different ways, that's why he asked Harrow which part Cam had so he knew where to focus. Doctor Sex was able to crawl to his lab and get his last project into a state for someone else to easily finish.
Wake definitely had enough awareness to physically burn Harrow whenever Harrow touched the sword—except when Harrow uses it to fight Cyth, who Wake hated more. So she probably did see Gideon grow up, to some extent! Saw her grow up fully entrenched in this system from birth and still recognize how shitty it was, watched her fight such a powerful necromancer with her bare hands and defy her at every turn. I wonder, in fact, exactly when she jumped from her bones to the sword, and if there was any in-between step. The only reason she would have had a link to that sword would be through Gideon. So... Could it have been that day, when Gideon and Harrow fought each other bloody specifically right in front of her niche? The fact that it was there, that the catalyst was Harrow catching Gideon telling her mother "I love you"... It very well could be.
And then, there's the one single time Wake ever sees Gideon with both having bodies, Harrow's face to Cytherea's face. Wake sees the body of the Lyctor she's been haunting, sees her daughter's eyes in that face, lowers the gun, and simply says, "Goodbye." Terse, cold... but... also not nothing. She could have said nothing. She could have just turned and trudged away. But she offers that one thing. "Goodbye." In context it feels... Not quite an apology, but maybe something that used to live down the street from one. You know what I mean?
And yeah, I absolutely believe she loved Pyrrha.
Maybe didn't love G1deon, not the same way, maybe not romantically at all, but she at least respected him. "He honestly deserves" a swift and painless death. I do also think their relationship was primarily physical, specifically because "that man is legendarily unamorous" with the "closest thing to interest" he'd ever shown in anyone being Pyrrha and Wake. We know he and Wake were fucking and that it at least started before he ever knew Pyrrha was why he sometimes blacked out; we don't know if he ever finally learned about it through that affair, he may or may not have. But he does feel intensely aromantic and romance-averse to me, leave him ooouuut of everyone's relationship drama thanks, so an enemy/frienemy with benefits might have been kind of an ideal situation lol.
But with Pyrrha it had gone on longer. With Pyrrha she got totally blindsided by this Lyctor suddenly kissing her presumably on a battlefield and going "you can just straight up kill me for this but your conviction is the hottest thing I've seen in all these 10,000 years" and. You know maybe Wake was strategically minded enough to think "wait, I can use this," but she also very well may have gone ",,, unfortunately this is also incredibly hot, fuck", or both. Honestly my money would be on both. And then... Well. G1deon's affair with her lasted around two years, and Pyrrha's had been going on longer. We don't know how much longer. Could have been a few months, or could have been many more years. Either way, especially from Wake's perspective, it was A While. And she kept coming back.
And of course, there are her final moments...
END OF THE LINE. FALLING. OXYGEN CAN’T LAST THE DISTANCE AND WON’T REDIRECT POWER FROM THE PAYLOAD. INSTEAD I WILL MAKE YOU WATCH EVERY MOMENT AS I GET THE LAST PRIVILEGE YOU CANNOT ENJOY YOU BYGONE SON OF A BITCH.
I HOPE YOU’RE BOTH AS SORRY AS I AM.
It's not betrayal if you didn't trust or care about the other person. When an enemy hurts you, you're upset that you're being hurt, but you expect it from them. When someone you love hurts you, you're upset that it's them hurting you. It hurts so much worse from someone you love...