PS3

Pros: Ps1 backwards compatible, Free online, JRPGs.

Cons: Good working controller has become hard to find and expensive. (tons of knock offs on ebay of questionable quality)

Xbox360

Pros: Digital store still works and MS has a better track record than Sony about keeping these things going. Controllers are cheap and everywhere.

Cons: Xbox live costs money.

Really if the controller issue isn't a problem for you, it should just come down to what games are you going to play?