For all of those who say that there is a rogue IOS process (or lets include 3rd party ones as well), then you can check that out pretty well at a lower level. This requires jailbreak, so if this is not allowed in here, my apologies. I had the battery problem in 6.1 and temporarily got rid of it by turning off my calendar sync everyplace you can do so under settings. I only use exchange if Google uses it as they are my only provider or any email services so I'm not sure if the exchange fix did anything for me.
Also: I'm using an iPad 3 with 16G, WiFi only. Here's what I did and observed and I used this because I'm familiar with Linux and BSD and all the things that the underpinnings of IOS seem 'similar' to:
1) installed 6.1 and saw I had a fairly large battery drain over 5.1.1 (~50% higher drain).
2) jailbreak it using evasion (takes a few minutes) and installed top from bsd-utils. Top monitors low level resourse Usage in a shell so I used MobileTerminal and top. You can monitor by CPU or IO or NET or anything you can think of. Things that are not in the 'switch applications conga line at the bottom of the screen will show up there'.
3) I saw that a process with 'mail' and 'sync' in it's name was using ~20% CPU or so and a bit of I/O on the network. If I killed (kill -9 {PID}) then it respawned. I sent this info off in an apple support email and never heard anything.
4) I then turned off all calendar sync since I'd read about that with exchange and that process stopped running at 20% and showed as 0% (well, that's as close as it gets for 'top')
5) Upgraded (and I use that term loosely) to 6.1.2 and restored apps and enabled calendars and did a jailbreak, installed a shell and top again.
6) top now shows nothing eating more than Springboard (which is now springboard and backboard for some reason), and they are only eating <2% which seems reasonable. That may also be because top is of course causing other things to have to support it so top does skew some results as does any investigative tool that runs on the thing you're investigating.
Result: for me, on iPad 3 , there isn't any greater battery usage now than there was in 5.1.1 or if there is it is small enough not to care about it. Doing a variety of things, I got about ~10-11 hours the day I got it, and get about the same today. Does anyone else have the problem at all on an iPad 3? Is this problem unique to iPhones (I don't have one)?
Apple doesn't give you many if any tools to troubleshoot so jailbreak might be the only way to look at the OS a bit. Warranty isn't affected since it is so easy to restore which wipes out any trace of a jailbreak in case of an RMA situation.
Message was edited by: Tuned101 - because I couldn't reply but my test reply worked, so I'm trying an actual reply.