The expected behavior would be for the new licenses to overwrite the trial licenses and the message to not be displayed anymore.
The new license file is appended to the current licenses and the message displayed will disappear when the trial license period expires.
At that point, they become invalid and only the new license count will be displayed in the console.
1) Create new folder called "Old Licenses" in .\Program files (x86)\eXpress\Deployment
2) Move all old licenses out of the "Licenses" folder and into the "Old Licenses" folder, leaving only the new license file in "Licenses"
3) Restart the Altiris eXpress Service
4) Check the console under the 'Help>About', that the message is gone and the license count is correct