Either you're not testing things before they come out or you're not thinking of the repercussions they might have depending on the servers and the way PvP is balanced, or not, there...
Right now servers that have much better PvP teams playing, lots of premades on one side or just generally better players on one faction are even getting more advantage from that, because of the way you structured medals and commendations awarded in WZs...
Example:
A server with low pop, but with more players on one faction than the other, or a faction who plays more PvP, you get consistently placed in WZs 5 vs 8, 6 vs 8, etc. The "better" faction farms all the medals they need and finishes the WZ fast with a victory. Result: lots of commendations for winning team, 10 to 15 commendations to each player of losing side, if they're lucky. The match starts with player difference and now doesn't end at all, suffering at it's peak for players on low pop side.
This will just widden the imbalance that some servers are having in terms of PvP. No one wants to play like this and just sit around waiting for transfers or merges or ranked or whatever while all the farming and victories go to just one side. I'm sure there are alot of servers that suffer from this.
The new maths for commendations and medals are useless even if the players make some effort to fight against the tide in a lose scenario of a imbalanced warzone, whatever the effort they make the opposing faction will always get 5 to 6 more commendations time after time. Just do the math and think of how the gear will be when ranked comes out, think of the difference there will be between both factions.
But hey I guess you're happy favoring the imbalance and just want everyone to reroll to the "winning" sides and most populated ones, regardless of the faction preferences each person might have.
Maybe you should have planned a game with no factions, if you can't balance them correctly. This favoring just like the valor farming in Ilum, but a bit more hidden from the eye...