I thought of a Pokemon story with a friend when we were playing Pokemon Unbound, we have a sorta beginning maybe a middle area and a near ending.
It begins with the player arriving by ship after their father passed away from field work. Their mother (which you name) greets you as she is a professor now and tells you that Pokemon are learning to speak like humans, but she knows you can understand them even without them doing so, calling it "your special talent." She then flies you to her hometown and lab and let's you pick any starter from any with the gender of your trainer, explaining she might've gone a bit crazy with breeding.
Later on you visit the big city, seeing it had a major expansion with the crime nearly all wiped out, bit the people and Pokemon look nervous as there are Pokemon and people with blue, yellow, or red police like suits. They are named Team Core, keeping the peace and power amongst Borius. One of the areas is in the center "The electrical plant, and the owner is a Gardevoir named Elanoir, leader of team Core and president of the plant. Her goal as q villain is to control space and time itself through Arceus , rather than pailka or dialga. In order to do that, she needs to harness energy from the three legendary birds, but she wanted to be quiet about it, so she kidnapped the legendary Pokemon as well as various matching types to help power the areas
The three areas of the plants are Anitias City for the Electric plant, Cinder Volcano for the Cooling plant, and what was once the shadow hodden base was repurposed into The Thermal Plant.
You release Articuno first and realize some of the Pokemon are happy or conditioned to be working there, the same thing happens in Aitias City and Zapdos, Elanoir explaining the second time of being too late that she WILL STOP YOU.
At the Thermal Plant you surprisingly have little resistance seeing moltress behind a window smiling at them as they smile back, but are ambushed and held down as she then makes a big reveal. Those talking Pokemon were willing subjects of trainers and their Pokemon, she then does the same to you and an (mostly anthro), fire type Pokemon, letting you choose which.
You then are brought back to the moltress as your new self in your clothes as it looks beyond angry. An alarm saying the core has reached 3600 degrees kelvin as a result, everyone panics and some try to hold the ground before you get the passcode to open the core. You approach moltress as it overloads the core, hugging it tightly as it tells you to let go, but you don't, it wraps its wings around you to protect you as the place becomes destroyed.
Arceus freezes time and willingly goes with Elanoir but tells her to not be surprised about the consequences she will face. You see them open portals to the past and future. Saying how they plan to erase your mother for what she did to Aklove.
That's all I got right now.