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I have this problem too. It seems to happen when I walk out of Bluetooth range. My Gear S3 will start buzzing like crazy and when I look I willwhave 90 new notifications all of which were cleared on the phone already and can be from days prior. I have uninstalled and reinstalled the gear app on my phone to resolve a different issue but I'm continuing to have this issue .
I have this very same issue, and have yet to resolve it. However, mine has been doing this since I purchased the watch and phone together back in the fall of 2017.
For a brief moment in time I thought it was resolved when I installed the new update for the gear s3, however, a few days later number sync turned off and after turning it back on, my messages went back to the way it was. I'm really getting tired of seeing the little red circle with 100 unread messages that only go away after checking them from the actual watch even though I've read them all from my phone days earlier. .
I have the very same issue.
I want my Email app on phone to give notification but silently (no sound, no phone vibration)
but on the other hand i would like my Gear S3 to vibrate on email notification.
I cannot achieve that. The only way i can force my Gear S3 to vibrate on notification is when also phone vibrates.
I used to have gear 2 and it works properly