Did you enable new zones for the harvest map addon which were not enabled before?
Check the addon manager ingame, there are seperate addons for each zone (AD, ...).
And in the settings of harvest map there are settings to disable the different types of harvest nodes. Disable/Enable those you want to hide/see.
Additional options (3d settings) can be found in the harvest map settings button which you are able to see if you press the I (inventory) key, at the top "Main menu bar", one of the most right buttons. A new window will open where you can setup 3d settings etc.
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