I recently stumbled upon the Ubustu Feed when I began learning Ardour. They have a great tutorial on how to sync Hydrogen with Ardour:

This tutorial will show you how to sync up the digital audio workstation, Ardour, and the advanced drum machine, Hydrogen. This will allow you to have a full featured drum machine playing in perfect time with your Ardour session. Or, one hell of a fancy click track.

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Source: Unity Behind Diversity