When using marxsis with krastorio 2 spaced out, it will show Incompatibility with mining drones and transport drones. It will be fine when using marxsis or transport drones or without krastorio.
ERROR loading mods
Failed to load mods: Error while running setup for entity prototype "electric-mining-drill" (mining-drill): next_upgrade target (kr-electric-mining-drill-mk2) must have the same collision mask.

Using ks2so and maraxsis with no problem right now, except that their sand are not same and can't be used in shared recipes.
Mby additional mods are causing this?

I've confirmed the same issue, but haven't yet resolved the cause.
If "Krastorio 2 Spaced Out" and "Mining Drones 2 Remastered" are enabled, the above error occurs during loading.

I've worked around the issue by disabling the "data.raw["mining-drill"]["electric-mining-drill"].next_upgrade" change that K2SO introduces.

Best I can guess, the clash may have something to do with the adjusted collision masks generated in the final fixes file from MD2R, which adds as mask layer for drones. K2SO doesn't define seem to define a collision mask in 'electric-mining-drill-mk2.lua', which could be why MD2R's changes make the easy upgrade between drills incompatible?

Seeing how the only working TD fork (melinge) is maintained I reverted ks2so to 1.4.30, because I highly doubt a patch will be made on TD side.

krastorio 2 spaced out + maraxsis
In Version: 1.4.28 this problem has been fixed.
Bugfixes:
- Fixed electric mining drill mk2 colission box doesn't apply with maraxsis enabled

but the problem remained with the mods:
krastorio 2 spaced out + maraxsis + transport drones
I'm sticking with the version krastorio 1.4.30