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This can be due to a number of many, very different reasons:

1. Wrong/No Activity: the Smart Control will only send your button presses to Remote Buddy if you've selected the "Remote Buddy" activity. Activities on the Harmony Smart Remote are chosen by pressing one of the buttons from the "Music, TV, Movie" row at the top of the remote. Please note: short and long presses of these buttons can select different activities.
2. Bluetooth turned off: please make sure that Bluetooth on your Mac is turned on.
3. Harmony Hub not paired: the Harmony Hub sometimes looses the Bluetooth pairing when making changes to its configuration. To initially establish - or re-establish - a Bluetooth pairing between the Harmony Hub and your Mac, follow this guide:
   Pairing instructionsShow

4. Soft keyboard pairing: make sure you only have paired your Harmony Hub to your Mac as a "Sony Playstation 3". If you also pair your Harmony Hub as a soft keyboard, Remote Buddy will no longer be able to capture input events coming from it. Why is this? In "Sony Playstation 3" mode, the Harmony Hub identifies as "Consumer Control" device to your Mac. For this class of devices, any app is allowed to exclusively capture all input. For keyboards, however, OS X only allows access to apps running with root/administrator priviledges, locking out Remote Buddy. To properly remove the pairing as a keyboard, first use the Harmony in that mode, then remove "Harmony Keyboard" from System Preferences > Bluetooth - and finally remove the respective device from your Harmony's configuration. Since OS X caches the identity of Bluetooth devices, it may take some time, several attempts and maybe even a system restart before OS X sees your Harmony Hub as a "Consumer Control" device again and again allows Remote Buddy access to it.
5. Empty batteries: if you can't control any devices with your Harmony Smart Remote at all, while using the "Harmony Control" app on your iOS device still works, chances are the battery of your remote needs to be replaced. Logitech provides instructions for this.

Please see the detailed HowTo on this topic in our blog.

The table that follows lists the commands the Harmony software assigns to the respective buttons by default - and how these need to be changed for Remote Buddy. For Remote Buddy, the commands for short and long button presses should always be identical.

Here's where and how you can make the changes:

Please verify that no power saving options are enabled at "Remote Buddy > Preferences > Hardware > Bluetooth Receiver".