Wobbles: First off, your Mewtwo is way to crazy, you shouldn't even be asking for advice.
But I'll see if I can help you out a little bit.
1.) If you're teleporting through missiles and getting pushed off of the edge, then that scenario doesn't make sense to me. If you're teleporting through missiles, then you're approaching and shouldn't get knocked to the edge. You can camp the top platform like you were doing before Samus got smart, and start charging your shadow ball. From there, you can use that as your big offensive approach. Try to call the next missile and throw it as that's going out, with forward momentum, then chase it the best you can and try to force a mistake from that big shield stun.
Your objective here is to try to get Samus to full hop or take to the air, and neutral air or get under her in between her aerials, or force a misplaced aerial for a shield grab. You want Samus to feel like Missiles are worthless, so swat a few away, dodge a few, safely confuse until she starts trying to approach with them. That's when you can start teleporting through them again.
2.) When you notice the crouch, shield the down tilt and forward air/neutral air out of shield. You can even try short hop reverse shadow ball charge on her CC. When Samus isn't shooting missiles, throw baby shadowballs and try to get a grab out of it.
It's a tough fight though, since Samus has a great ground game, but it's all just a mindset and breaking the Samus of that grounded and solid mindset. Keep trying to get her doing new things, different things that don't work in frustration of her real good things not "seeming" as effective. Remember 104% up throws on Samus on FD
It kills earlier than Forward air.
3.) Sorry, I'm Taj and that's just how I roll. No Johns, son. Play like a champion.
Happy Post Taj Day