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If you are trying to the delete the surface above the perpendicular surface, I would split that surface by plane at the top of the perpendicular surface and then delete it.
Hi Haveto,
I think the surface was splitted in that location. and now you have supressed it as it shows blue color.
You cannot delete that line; it will not cause any issue in meshing.
You can go ahead and mesh the surface.
Thanks
Rajashri