If by plot you mean a story that takes an entire season to tell (like say, something involving the villains), then no. I think the best way to go is to have a good mix of mini-plots and regular episodes; something everyone can enjoy. It would be nice if those mini-plots revolved around something other than battles though. If they need bigger plots, then they should just up the ante of the movies already.
I am the current leader of Save Our Voice Actors, a Pokemon fan group supporting the voice actors in the anime dubbed by 4Kids (seasons 1-8). Our goal is to provide The Pokemon Company international with encouraging feedback in support of returning the main cast members. If you're interested, please visit us at facebook.com/saveourvoiceactors