That is exactly my point! The ship's scanner will detect a planet that is now suitable for human life, somehow detect that the ecosystem has been artificially altered to make it so, and report it as "terraformed" because that is how it has been programmed by a human. It can't tell if the change to the planet's ecosystem has been done by humans or non-humans. All it can do is detect that the planet now has similar life conditions to Earth (Terra).
The only reason the scanner can tell if a planet has been terra formed is because it has been programmed to detect terra forming by humans.
If it was a case that the scanner is just picking up a similar atmosphere to Earth then the Scanner would just say its an ELW, Some ELW's are naturally like that and others have been terraformed to be like that. The Scanner is programmed to recognise if a planet has been terra formed or all Terra forming is official logged in the scanners central database and is only unlocked after it has been scanned ( due to the scanners data capacity ) Or when we Terraform a planet we leave a little beacon on the planet as a marker ( most likely scenario )
This can only mean that its impossible for the scanner to pick up terra forming or xeno forming from Alien cultures as its not programmed in their methods.
One more thing, Not once ever has the surface scanner ever picked up a terraformed world outside human space except once which was a bug.
None of the ruins sites or nearby planets came up as terraformed yet its likely the Guardians did use terraforming ( maybe too old now to recognise ).
Right now we only know of 2 space faring species in the galaxy, one was the Guardians ( likely extinct with possible AI remnants ) and the other the myth of the Thargoids of which details are sketchy.
We also know that the scanner needs to be programmed to find certain things r.e - Ram Tahs mod.
Its possible in the future with research into other species we find that we can then programme the scanner on the intricacies of their worlds.
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