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Pokémon are always going to be depicted differently in the anime and the games. The anime is meant to showcase Pokémon as cute, cool marketable creatures and sometimes the writers take shortcuts like giving Lapras telepathy. And just like other animated shows it’s far more convenient making them be able to understand what humans say like Scooby Doo, later shows actually have a reason to why he speaks. The biggest example being Team Rocket Meowth who speaks in the anime but in Yellow and LGPE doesn’t and behaves much less like a person.
For the games it could be that Pokémon understand your commands from the get go for the sake of gameplay. I was recently playing Let’s Go Eevee and there was an NPC teaching a Nidorono how to sit on command. There’s also some Pokejobs in SWSH where Pokémon require a high level of understanding and communication, usually the jobs that deal with electricity, inspection and machinery. Jobs that require an education a Pokémon can do on the fly, which might or might not be a gameplay thing. There’s a disconnect from what the Pokédex says and what we actually see. We never really see some of the darker ones like Sneasels being killed by Pokémon breeders and despite pointing out that Pokémon like Lapras and Ninetales are intelligent enough to understand humans we see even the dumbest Pokémon being able to understand humans. As I said, it could be for the sake of gameplay. And there’s snap where we are shown Pokémon behaving in their natural habitat. I haven’t played it so I dunno how intelligent they chose to portray them there.
Anyways if we solely by the Pokédex than most Pokémon aren’t intelligent and can’t comprehend humans. But overall the games and anime show the opposite, probably for the sake of gameplay and storytelling.
