It still also comes to my point that TR can't be part of big stories if the writers don't make them impactful to the story besides the aforementioned formula. It shows that giving TR any sort of breakthrough means nothing if they don't have the writing direction to go with it. They could have had James go nuts over the Hyper Training bottle caps for example, or their Masalada truck rival Mallow's restaurant, or do SOMETHING more effective with the Necrozma arc besides act as second banana (was there even a point to Giovanni/Nanu's connection or Matori Matrix?). They're just not interested in making them part of the heroes' story anymore, even when they actually lay out the perfect means to do such. I mean even in recent cases you made like the Flare arc I wouldn't say they were EXTREMELY vital, it was just an enemy mine thing where everyone got a little moment.
I mean BW's handling of TR was iffy, but they at least committed to it in many cases. If TR were just superficially serious and 'elite' but still just nuisances that got blasted off easily every episode, it would have been a worthless twist, but they did at least put the substance to it, with them regularly forcing effortful battles out of the twerps, making some progression in long running schemes that made palpable arcs, and being a legitimate rival to Team Plasma. It did also lead up to a proper face off with Giovanni and the rest of the organisation, and unlike with Necrozma, they weren't just padding or a shooed away plot device for 'the bigger picture', they were the centre piece. Even the times they were comedic or pitiful again, the other characters bounced off of that and it made for funny stories or dynamics (eg. the Meowth turns good arc). They were for once, effective characters.
As said the upcoming Mewtwo movie may be the ideal situation to make them relevant to the story if they keep Mewtwo's backstory and maybe even parts of the radio drama, but I have a heavy feeling they're just be the usual brief comic relief again.