burnabyimiev, your charging curve looks very normal. The charging system normally takes a 'timeout' which can last anywhere from six minutes to over 20 minutes. It is theorized that this 'timeout' is for the battery management system to assess how much sag occurred with power removed before proceeding.
You need to recognize that there is a power conversion loss associated with charging the car. I don't remember what we finally came up with for the iMiEV, but let's say 90% using 240vac: if you measured 14.07kWh going in, you only put in 12.7kWh into the battery pack, which is even less than you thought! I wouldn't worry about it. Now that we have CaniOn, we see that there is quite a bit of 'safety' residual energy left even though the fuel gauge is down to zero. BUT - you don't want to go there, as running on empty is deleterious to battery health - think of it only as an emergency backup fuel source.
Reflecting further, your one bar means you had less than 2kWh 'visible' left in your pack, and add that to, say, 2kWh emergency reserve and add that to the 12.7kWh you put back in and you're somewhere around the nominal 16kWh battery capacity. No worries!
Ah, found it: here is a set of Canion readings for number of bars vs. SoC: http://myimiev.com/forum/viewtopic.php?p=13018#p13018