Hey,
I'm using Plex Sync to transfer music to my iPhone. I select music with the Sync button on albums in the Plex Media Server web interface and then select my phone. It shows up on my phone but sometimes it creates a new section with the same name "Music" and transfers an album there. So it's always spread out over multiple sections. In "Delete all content" only the content of the latest section gets deleted. The old one just stays there.
Interesting is that only the new section (the one that shows up in Synced Content view) has the server name the content came from next to it.
I'm using PMS 1.1.0 and the latest version of the iOS app.