I've now removed Plex II, and a restart got rid of the duplicate Plex behaviours.

I've also decided for now to get rid of the multiple remotes I had added for Plex. It just creates too much confusion with other apps trying to work out what key the Harmony is sending in order to determine how to map it.

On a separate note, I can't seem to get a particular function to work properly with the new behaviour. Previously I had the 'Menu' button mapped to go to previous menu in Plex - this was done by mapping it to the Virtual Remote, Menu button. Now this just brings up the on-screen menu in Plex. I've also tried changing the mapping to 'Navigation:previous menu' but this does the same (brings up the Plex on-screen menu).

Any ideas how to resolve this?

Thanks,

Tom