I have a similar issue. I bought the Obsidian Edition on Steam and waited for all the extra content to be available. I logged into my Asmodee account then I linked it to my Android device using the code from my Android device since that is my main one. It looks like the gold and alts transferred over fine but the dice, runes, charms, and treasure cards did not.
If I log into my Asmodee account on my Android device I see all the dice, treasures, etc from buying the Obsidian Edition but all the other treasures I've gotten are gone, I only have one copy of each card. Also my gold goes down to 5000 which is the free amount for buying the Obi Ed. When I close the app on Android I have to sign back in to Asmo and if I don't do that I see my original all content without the Obi Ed treasure, dice, etc again. How do I get all of my content merged?