I disagree... strongly.
For short term storage of Li-Ion batteries, store charged. These batteries have a very low level of self-discharge.
For long term storage of Li-Ion batteries, store uncharged. Then once every 3-4 months, charge them to about 30%, and then let them self-discharge over the next 3-4 months.
I have to manage a network with over 100 iBooks in total. As you can imagine, the biggest issue with them is their batteries. They're expensive to replace, and with their constant use, the batteries wear out MUCH faster than in a standard situation. Proper battery management is VERY important in this situation, to keep them running properly.
But hey - whatever. I've found what I described to be the most successful method of prolonging their life during long-term storage. I'm sure others have found it to be the other way around. It all depends, but I'm describing to you what works best for me.
I'd store it un-charged.