Isn't that always the way?
Not normally with IP holders, especially experienced IP holders. Different ones approach it different ways.
For example, Games Workshop, who licence a lot of stuff (and used to refuse to do AAA games for fear it would steal customers from their minis), do a sort of "constantly looped in" approach but don't attempt to interfere with gameplay. In fact, they've allowed a lot of gameplay which is pretty hardcore at odds with mechanics and even setting lore. What they want is to keep the IP intact, so they don't what the actual conceptual lore and history messed with, they don't want the visual design messed with, they want consistency on how the temperaments and speech-patterns of the various races are portrayed and so on. So with Warhammer: Age of Reckoning (aka Warhammer Online, the MMORPG), for example, they had literally daily meetings and were sent any lore that was going in the game, together with concept sketches and so on. Whilst this apparently pretty stressful for the one person who had to speak to them every day, it worked well overall, and WAR came out looking and sounding complete Warhammer, but with its own gameplay and so on (which was very much a sort of mash-up of Dark Age of Camelot and World of Warcraft, as you might expect from a post-WoW game by the DAoC people).
Other companies have also successfully worked closely with them, without gameplay ever getting interfered with, just lore and visual design being ensured to be "correct.
Disney are a bit different. They're even tighter on lore/visual design if it's core Disney stuff (Mickey, Princesses, etc.) but are willing to do some incredibly wild stuff like Kingdom Hearts (basically a Final Fantasy/Disney mash-up), a little looser with Star Wars, looser still with Marvel, and they also don't interfere with gameplay or try to dictate what types of game are being made, beyond saying no to certain games at the conceptual stage but. But they will do is, if they don't like where a game is going, and they don't want it come out, they just throw a huge amount of money at the studio/publisher and tell them to shut it down. This is why there are so many unfinished AAA or AAA+ Star Wars games since Disney got the IP. Disney just goes "That's cool but nah" and shuts them down. This is pretty upsetting for individual devs and especially studio heads, but at least people get paid.
What is abnormal here is WotC apparently/allegedly trying to interfere with the gameplay/type of game it was, rather than agreeing what type of game it would be at the start and letting it go.
Now, that's actually not abnormal from another perspective, because WotC are the studio owners, i.e. effectively the publisher (possibly literally, I forget). So it's more like when Electronic Arts comes to BioWare and says "We need you to make this game more action-y!" or the like, or "This needs to be a Game-as-a-Service!" or "Keep flying in this game at all costs!".
But perhaps it shows that it might be unfortunate for an AAA dev to have the IP holder be both the IP holder AND the owner/publisher of the game.
Or maybe Tuque just made a pretty bad game. It's not exactly unbelievable, given the short timeframe involved.
I'm actually quite surprised that there is no bots for the other three Companions if your playing the game Single Player. I can only think the reason why, in good faith, that is the case is due to the fact that they are patching in Couch-Coop some point after the initial release.
Personally I was thinking it was because the game was rushed out and they didn't have time to code even half-arsed AI for bot companions.