Is the Agile link still avaliable? License updates sometimes might take a while, if you still have Greenhopper avaliable I recommend you to open a support ticket on https://support.atlassian.com so we can investigate why has the license not been updated and, if comes to the case, update it manually for you.
Could you care to elaborate how did you remove your Greenhopper plugin? Could you make sure that you have disabled Greenhopper from the manage add-ons page?
You can refer to this page to disabling Greenhopper plugin.
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