I don't think you can remove those. I'm not sure why you want to, it just means there are settlements of some kind.Is there a way to stop showing the 'city' indicator on bodies that don't actually have a real starport? My system maps have a lot of those three-bars-means-land-here overlays, then I zoom in and it's all civilian outposts?
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(Also I can't tell if it's Odyssey, but I've jumped to about 6-7 inhabited but 'unexplored' Colonia systems and not one of them has a space station... I don't think I've ever seen a system without a station before. I just want a reliable agricultural system to be friends with, I don't want to have to do a planetary landing every time)
As for Agriculture oriented non-planetary stations near Colonia, I did an EDDB search and came up with Deriso, Metzli, Hamlet's Harmony, Kinesi, Einheriar, and Pekoe as having them.