Hot dang, these are all excellent replies. Thanks everyone, nice to see I'm not the only one experiencing things this way.
I'm about 5 weddings deep in terms of editing right now, so it'll be a bit before I really get a chance to sit down and LOOK at those photos. Observations since then would suggest that, part of what I was experiencing was just the massive, MASSIVE difference between the old 5D screen and the 6D screen. I'll attempt to post some samples of my own photos ASAP. I deleted most of the problem ones in camera while I was shooting, but a few should be left.
After sitting and reflecting for a bit, I realized this. I've used those 5D bodies for so long and expected the 6D to function similarly, despite the fact that I purchased it for the very reason that I wanted an *upgrade*, not the same camera.
I figure it'll take a few months, but the 6D will feel more at home in my hands as I shoot through the end of my wedding season and into family photos around the holidays.
amfoto1, your comments were a very helpful read. Thanks for taking the time to write that. Although I'm not sure who first brought up the issue of WB. For the most part, that was spot on. Maybe even a bit cooler than normal.
Also, this is embarrassing to admit, but I have never used A-EL before. I've been experimenting with it now that it's been mentioned, and I'll see how it affects my shooting experience with the 6D.
Thanks for the feedback everyone. Photos to come.