Thanks so much for the replies
I moved his crate into my office (from the kitchen) and now he likes to poop all over the kitchen AND my office. Not contained in the crate anymore. It's almost as if he's decided he doesn't need his litter boxes anymore--scary, because he's peeing SOMEwhere... maybe he's peeing in there but that's it?
So on the same topic, I would vacuum/sweep up his droppings every morning from the bottom of his crate, and he'd act a bit--agitated? Didn't seem angry, just like 'WTF are you doing? I MADE THOSE!'. Did I just do a horrible job litter box training, or do I just need to leave some droppings in the bottom of the crate (there's a big plastic tray at the bottom vs. wire) so he feels his territorial claim is being respected? I've been reading and researching, but I can't find any good answers, so thank you for your patience!
You've got a few things going on. First is that rabbits are considered litter trained when they consistently pee in their litter box. Their little poop balls are an entirely different matter. He's just at the right age for hormones to be starting, which means he'll naturally be driven to mark his territory. Rabbits don't leave their little balls everywhere because they don't know how to leave them in the litter box. It's him purposely leaving them to establish that as 'his' place, 'his' territory. But even fixed rabbits will mark territory with their poop balls, just usually not as excessively as when hormones are involved.
It's exactly the reason for your observations of him getting tiffed at you cleaning up his hard work, because he MEANT to leave those there to mark his territory, and now here you go scooping them up
@JLMH this also likely applies to your rabbits behavior, leaving a little pile to mark her territory, and not wanting you removing it.
The other thing is that any time you change a rabbits area, meaning you move them to a new location, or even if you rearange things in their current area, or if new animals or people are brought into your home, this can cause a resurge of territorial marking. You moved him into the kitchen, so all new smells, all new territory, that needs his scent added to it. Usually this will subside after a few weeks, once the rabbit has settled into their new place and feels like they've firmly established it as 'theirs'. Though in still hormonal rabbits, this can vary, because of the hormones affecting their behavior.
With new rabbits you intend to free roam, to firmly establish their set area as 'theirs', so they don't think your whole house is 'theirs' and they can thus appropriately mark it, it's usually best to start off with keeping them in a set penned area, their 'home base'. Then once their litter habits are consistent(meaning their peeing in the litter box most of the time), gradually start expanding their space into an already bunny proofed area you intend to let them free roam in. Suddenly giving them the whole area and too much space at once, can be enought to set off territorial marking. It's the slow expansion that let's you be sure they continue to use their litter box, before you open it all up to them. Pet exercise pens are a good way to gradually expand territory.
https://rabbitsindoors.weebly.com/free-roaming-how-to.html
But the main thing working against getting this all working well, is those pesky hormones. A male rabbit, that might be absolutely perfect using the litter box before the hormones start, can become an absolute pig marking everything, including urine spraying, after hormones set in. And if you haven't yet experienced little droplets of urine spraying across your face and into your mouth, as he whips his butt around to spray and mark you, count yourself lucky :
This is one BIG reason many pet male rabbits get the snip. Along with the fact that they often start trying to hump everything in sight, including you!
You may luck out and he'll be perfectly behaved with the humping and the urine spraying., and you won't have to worry about that, whether or not you decide to get him neutered when he's old enough, which is usually once both testicles descend, though being a flemmie, they take longer to mature fully, so I'm not sure what age exactly, a vet would want him to be to ahead and neuter.
Now, if your bun is consistently peeing in his litter box already, then he's considered litter trained. The poop marking may subside after a few weeks, but that just depends on how much of that is just his normal rabbit behavior and how much is hormones. What may help a little, since it bothers him that you're cleaning up his territorial markings, is to either distract him with something else(eg. like food) while you clean, or to make sure to leave a few behind so he doesn't feel like he needs to remark his space as much. It may or may not work, it does for some rabbits and not for others.
And to really improve litter habits and territorial marking, is to get him neutered when he's old enough. Though there's no guarantee this will fix it all, as some rabbits natural personalities are just to be messy pigs
But most often it does cause significant improvements in a rabbits litter habits. Though it won't be immediate, as it can take anywhere from one to two months for the hormones to fully fade.
https://wabbitwiki.com/wiki/Spaying_and_neutering_rabbits
https://rabbit.org/vet-listings/
If he's not consistently peeing in the litter box, yes hormones are likely to affect this, but also litter box set up and placement can play a part. The right litter box, the right litter, a soft layer on top, where you place the litter box... all matters to the success of litter training. So if you're having issues, it might not just be hormones, but that his litter box, and it's placement, need tweeking.
https://rabbitsindoors.weebly.com/litter-training.html
https://wabbitwiki.com/wiki/Litter_training
Another thing I thought I'd mention, is bunny proofing. I can see he's snipped a charger cord in that first photo, and you mention him chewing cords in your home, so some bunny proofing is definitely needed, if it hasn't already been done. I also mention this because of the danger that it presents, to not only him, but to you and those in your home. Low voltage phone charger, not so much, but regular electric cords pose a huge risk if he is trying to chew through those. For the electricution risk, and also electric burns, but it also is a fire hazard, as frayed cords can cause a fire to start(happened to a past RO member). So, if you don't already have those cords sorted, I would strongly recommend not letting him free roam until you're able to get the area fully bunny proofed.
https://wabbitwiki.com/wiki/Bunny-proofing
https://rabbitsindoors.weebly.com/bunny-proofing.html
Poop marking... chewed through charging cords... welcome to the joys of bunny parenting