Option 1: There has been several reports that the Daily Sync has not been happening over the last few days. On the Wayfarer Map, Accepted will be shown as “Not in Game” until Pokemon Go updates Wayfarer If or What it will be used as. Maybe this is the same for the in game map.
B: Your Acceptance email states that "Not all wayspots will be used in all games.
Remember that a large portion of the wayspots used in Pokemon Go where nominated by the Players of Ingress (back when they where both owned by Niantic). Is it dumb that these are used in Pokemon Go, maybe they should all be removed from the map?
The most common reason for accepted wayspots not appearing in Pokemon Go is due to the Proximity Rules. More details can be found at https://community.wayfarer.scopely.com/t/why-an-accepted-wayspot-may-not-be-used-in-pokemon-go-s2-cells-and-pokemon-go
If you post the Title and Location (shown on the 1st email you receive when you nominate) we can take a look and might be able to advise better.
Good Luck.