Hello.
I always put mounting holes also to schematics and define the footprint there. This way they won't disappear.
Br.
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On L, dets 31, 2022 at 1:00, Chris via groups.io
<chris.carter.iee@...> wrote:
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In the KiCad PCB Editor a selected component can be 'locked' with hotkey 'L' by default. I assume you are placing your mounting holes in the PCB Editor using 'Add a footprint' (hotkey 'A') and selecting a footprint from the MountingHole library (i.e. 'MountingHole_3.2mm_M3' or something).
Such a component should survive an update from the schematic (using 'Update PCB from Schematic') UNLESS you have selected 'Delete footprints with no symbols'.

If you have that selected, your additional footprints will get blown away even if you locked them beforehand.