I assume if they do introduce Spider-Gwen, which I think has been confirmed at this point for the second Spider-Verse, they'll just completely gloss over her having any relationship or meaningfullness to Peter and her death.
It would just be really random if they introduced a Gwen Stacy into the cartoon now, especially when Peter isn't even going to school now, just to setup Spider-Gwen's appearance. And they're definitely not going to kill off a Gwen Stacy or just assumed it happened.
So while they're obviously going to lose some of the appeal Spider-Gwen has in being a Gwen Stacy who didn't die and became a hero of her world, they're likely going to try and make up for it by emphasizing the style of the comic and the cool costume.