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There are pink artefacts in the first row of each of the following files: 'concrete.png' and 'stone-path.png' under 'data\base\graphics\terrain\water-transitions', and 'foundation.png' under 'data\space-age\graphics\terrain\water-transitions'.

Does this have any physical implications in-game?

Sorry for the late response.

The pink area on the texture, which should be transparent, doesn't seem to have any effect in the game.

Otherwise, the pink on the black-and-white layer appears as a greenish tint in the game, creating a rectangle that looks slightly out of place.

I’d classify this as the kind of thing you don't notice until you see it, and once you do, you can't unsee it.

I've fixed these manually for the next release.