Subtext, like someone else said, is a really cowardly way of writing.
Barely told, not shown.
Also said:
If it's subtext, "No there isn't",
if it's an allusion, "You're ruining it by mentioning it",
if it's a metaphor, "You're reading too far into it, and it's something more palatable",
if it's on-screen, "Awful glorified sexual torture"
Very tricky to properly handle, either yes or no, if no, great relief, if yes, very minimal and without positives.
Main issue is Jericho's writing, a power hierarchy doesn't allow agent-suffering.
Bob, most capable normal human, tried, failed, nothing can be done.
It works for John, to develop him he couldn't have agency, would naturally never choose to mutate.
Bob wasn't harmed by his choice, he was harmed by others due to his choice, it's not enriching for a character.
-If Bob generally pitied/liked the women/children and wanted to rescue as many as he could, it would've made a more interesting dynamic, a "can I trust him?" "I might love him" thing, instead, it's a given to trust Bob, and Lily (That if Lily/Maya grew to care for Bob, then it'd be Bob's handling of what to do(Lily for example, could kill Maya by sabotaging/pushing her to aliens, this would give Lily a flaw, deadly jealousy)).
-Would then be a retcon that his helmet scar is from scouting for a safe location, not, trying to escape, and he waited for a perfect opportunity to escape, this is where characters will doubt him, as it's not a given he's trustworthy (More interesting).
-Lily/Bob are both flawless and victims of Oscar (Both sort of "princesses" in having done nothing wrong, seemingly ever, but both suffer unable to do anything).
-Bob has the "I let it all happen" talk with John, but, he couldn't have done anything, it's a pretty shallow "truth be told" unless he literally begin to let it happen, maybe he was talking about before he tried to run away? That I guess makes sense, it could've also been a "turn over a new leaf" talk with John, I feel it was a muddy conversation.
-Maya's caution could've been over whether John would beat/rape her, she knows Bob won't, but unsure about John, to then learn John isn't going to, so she relaxes, is grateful, and this redeems her character (A reason to be cautious, beyond just "scary").
-Maya honestly, might've been one of my favourite characters, she (revealed to be rightfully) doubted John (John later says it felt amazing to kill). She could've been expanded on a bit more, though killing characters I won't say is bad for tension building.
-Leon and Oscar don't make sense, Leon sees the women as equal but never bothered to check on what they think of Oscar? Bob tried to escape, did Leon never ask the women what they thought? No sense.
-It'd be nice to counterbalance rape with intimate scenes, just having rape, is quite lame. Sort of does with Pano and John, maybe also Alda and Luo eventually. Just have to see.
-It's nice Lily is a strong character, not depicted as a pitiful hopeless victim, it's realistic, victims don't just lay there lifelessly like some doll (If we're being eerie, they're often tense).
-Only reason I can imagine to include was to clarify adaptors can't have children (Bob says), which implies it is rape (not sex, as Lily doesn't like it).
-Best to drop little lines about it, not flashbacks, if neither then let it go.
--BUT:
-Rape only goes off Bob and Leon's suspicions
(Neither knew Oscar would beat Lily, "both were wrong")
(Lily did say it was okay, this doesn't clarify a lot, but if she's not being raped, then it has more weight, and that it truly is okay)
-Beating being common means Oscar could partially, not fully, be disregarding Leon
(Red herring, treating her the same as Bob, as family)
(Disregard: Treat different, not, Disregard: Delicate and outlet)
-We only know he beat Lily, Lily nor Oscar have commented anything more
(Oscar was shown waking up naked, but on a single pillow in the center, I imagine another red herring, he's just in his bed)
-Oscar only visits Lily, there's no "Did it to X, likely does it to Lily too"
-John would never side with Oscar if he raped Lily, Oscar's hope to ally John is pointless text
-A good, and big shock, Oscar trying to join John argues against Bob, Lily has to begrudgingly agree he never went too far
-Oscar doesn't agree with Leon letting his emotions get in the way of things, it's not strategical to rape
I guess worst outcome is, yes, Oscar raped Lily a lot. Soldiers rape prisoner women, Leon said this was for children, was it done to all the women? Not sure, worst case, probably. It's not clarified.
"Highserk" did rape well, raping soldiers would get lashed, and a monster is shown to, showing they're pure evil (Neither were sexualised, dragged on, or glorified, it was touched on then left).
"Berserk" I'll argue did it horribly, heavily sexualised, wrapping arms around, kissing, chest hardens, scars are removed, different positions, blushing, sparks, fluids everywhere, etc, it's dragged on, and glorified.
"Bugle" is an example of needlessness, it's already established raping is common, and there's a moment a side character is implied to being raped (it's not shown, but characters react to seeing it), it adds nothing new to the story, I imagine it's only to garner viewer pity, personally I couldn't care, it's so extreme for such a short amount of time, and as far as I'm aware isn't touched on again, it'd be pointless to care.