>>31003382Make Lysander less of a hypocrite by having him double-cross all the rich idiots who paid to be saved. Only himself and the "worthy few" of his choosing should be in the final area, safe from the ultimate weapon.
Drop the scientists entirely, or reinvent them to at least have the personality depth of the Rocket Executives. Make their designs a little more distinct than just technicolor bimbos. Drop the nameless Admins and have the Scientists stand in for them instead.
Make Xerosic actually be Lysandre's right-hand man with the plot relevance that implies instead of "mad scientist who shows up at the eleventh hour for no reason" who isn't relevant until post-game.
There's not really any reason for AZ to be directly tied to Team Flare's plot. Make his lore optional or just divorce it from the finale of the game. If we're gonna get a five minute cutscene, let it explain why Lysandre wants to nuke everything instead.
Make them actually at least a little popular in Kalos instead of everyone just writing them off as tacky elitist assholes. There are plenty of characters who could easily be written to be supporting their message. We have Malva, but she's irrelevant until endgame. Replace one of the Gym Leaders nobody cares about with a pro-Flare Gym Leader. If you want to go full cuh-rayzee have Professor Sycamore go from "oh that wacky Lysandre" to actually being their Head Scientist. Have Serena/Calem actually join Team Flare when they get sick of losing to you.