Pro Tools handles audio clips and their automation playlists differently from MIDI clips and their automation playlists.
On audio tracks, automation data resides on a separate playlist from audio data and clips. Each edit playlist on an audio track shares the same automation data.
On MIDI tracks and Instrument tracks, all controller automation data except for MIDI Mute data, or audio mute (Instrument tracks only), is stored in the MIDI clip that contains it. Each edit playlist on the track is separate, and represents a distinct performance, complete with controller automation.