First, this should be in the understanding fico scores forum. Second, Credit Karma does not weigh utilization the same way that Fico does. If you look at your Vantage score (also available on CK site), it should have bumped more in response to utilization changes. Finally, are you sure that the change has posted to Transunion (which ck uses)? TU is notoriously slow to update, so make sure that CK is actually showing the balance you are expecting.
My CK scores jump all the time without any movement in my FICO scores. There's really no point in trying to predict why your CK score didn't recover to the same level as it was before. First, I think people know even less about how the Vantage and/or Transrisk formulas work than how FICO works, so any prediction is going to be mostly conjecture. Second, your score from CK isn't predictive of your FICO score, so you'd be piling on even more conjecture as to what your FICO score is.
Starting Score: ~500 (12/01/2008)
100% Ficos: EX 751, TU 731, Walmart TU fico 740, EQ 741
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