Of your examples, I'm not really sure what you're trying to point out to be completely honest. Ret was weak across the board at Cataclysm launch if I recall correctly. Shaman were the strongest PvP healer from day one of Cataclysm and still are to this day, yet was fed nothing but buffs for the sake of PvE. Arcane and fury aren't really known as PvP specs, so I don't know how those correlate with arena balance. Rogues had always been one of the strongest PvP classes and they're much weaker now after 5.0, but to put that all on arena balance is nothing more than a guess. It could just as likely be that their plan to bolster numbers with legendary daggers was overly effective and they wanted to lower rogue numbers again. I doubt rogues' low damage is a result of arena balance though, as they've been balancing almost entirely on control adjustments recently. Besides, rogues' damage is the one thing they still have going for them. They've still got enough burst to kill someone, they just have gimped mobility and survivability now.
Historically, I think PvE balance has had a larger effect on PvP than vice versa, but I'm sure it's gone both ways to some degree.