My cons:
Lack of storage for such a claustrophobic interior
Fuel
Outdated electronics that will fail eventually
Weight
Seats
Styling
It's not like a lifetime-keeper like 40 through 80 can be.
I agree on lack of storage, particularly in the trunk. It's frustrating to have a 50# toolbag constantly in the way.
The outdated electronics are annoying but it's the price of reliability. My Acura MDX had better electronics and the DVD in the Nav system crapped the bed after 5-6 years. I wish I could've bought a stripped down 200 and put in my own head unit (and just avoided the cost of the rear entertainment altogether), but if/when it fails one day there are units out there for <$500 which do everything including climate except the windshield deicer, so at that time I'll figure out the wiring and make one work.
Fuel economy sucks on the highway when I tow and that's my big complaint. Around town auto stop/start would probably help a bit but the difference between 8 and 9 mpg is negligible. Cylinder deactivation wouldn't help with a heavy load (i.e. trailer) in 4th gear. Those are techs I'd expect to see in the 300 though.
Weight sucks but it's the price of admission into the US market. 10 airbags, multiple camera, ABS, stronger crash protection... every vehicle has tacked on 1000# over the last 15-20 years. That's not to mention how beefy a lot of components are compared to older models. Toyota could have saved weight by optimizing the material used in the tie rods and then you'd have the issue of tie rods breaking regularly on the trail like every FJ Cruiser owner eventually has, for instance.
I miss the thigh support of my 3rd gen 4runner "sport" but in general the seats are more comfortable in the 200 than any other vehicle I've ever owned. Granted it's also the most expensive vehicle I've ever owned. I can imagine them being better, but go drive a 1st or 2nd gen Prius for a few hours and tell me the seats in the 200 aren't wonderful.
Styling is a preference but post-mod I like the 200 much more than the 100 or 80. Maybe I'm in the minority but I think the only advantages of the 80 are less electronics and a solid front axle. And entry cost, even with 80 prices moving upward. I <3 40s but unless I can find a 45 they're impractical to someone like me with 3 kids. A nicely done 60 is pretty on the outside but talk about an awful interior. I'd still consider one.