I've never ran my LiPos down that much. I'll run a 5000 LiPo one to two races, before charging them again. But mostly, they get charged right after a race.

As far as puffyness goes... I couldn't tell you. The case on my TP Lipo came loose, but I managed to pop it back in, and re-tape it. That's what got me worried in the first place. And noticed a slight bump in my SMC. I wouldn't have notice it if the seam on one side was slightly extended.