i see a lot of pvp gear QQ about it being a lower score, Of course its lower. When you google or yahoo for wow-heroes it tells you its a PVE ranking/score system. please use common sense.
Also, PvP will always be lower because you lose Major.. and i mean MAJOR stats that PvE gear provides. especially stats that pertain to your CLASS or ROLE. so, do NOT raid with pvp gear or you'll likely not be invited to the good raids.