Please, try download it again, because the actual files in the Cloud9 installer might have been updated without the version number being updated as well.
However, I'm not sure now, are you refering to EHAM of JFK ?? Because for JFK, there was only one AES release and it was never made obsolete by any upgrade of the scenery, nor the scenery ever needed an upgrade to support an AES update, so you should never see the red AES message at JFK to begin with.
Check also your scenery.cfg is in order and that another installer hasn't corrupted it, or moved JFK too low in priority, or something like that. I also seems to recall that some users had issues with external utilities that manage the scenery.cfg.