The GEC always gets landed somewhere on the 'derived' system, meaning the new isolated set of currents being created at the transformer. Since this transformer is being used 'in reverse', X0 is on the primary side, already part of the grounded supply system, and not to be be connected.
Your choices for landing the GEC are:
1) Corner grounding. Simply connecting to an H terminal
This is the simplest approach. Anything that works 'line to line' will have no problem with this. The risk is if you have _any_ ground referenced components. TVS filtering on variable speed drives is the big culprit here. If you corner ground make sure the customer knows that the transformers will need to be upgraded when the RTUs get changed, since modern RTUs often use variable speed drives.
2) Adding a grounding autotransformer. This is a specialized additional transformer that 'derives' and H0 terminal from H1, H2, H3. Then you ground the H0. This is rare for 'small' transformers, but possible. Search for 'grounding transformer'. I'd expect these to be custom and thus expensive for the size, and cheaper to simply replace the transformers with proper 208V:480V delta:wye units.
3) Going ungrounded and using a ground detector. Here is an example of a ground detector. One problem is that when you have a ground fault, someone is supposed to notice the lights and get the system repaired. How likely do you expect this to be in the location??
https://beaverelectrical.com/products/GIP-4
I believe the code for an ungrounded 480V system has requirements about 'conditions of supervision' or some such.
4) Replacing the transformer.
IMHO your choices are 1 or 4, depending upon the specifics of the equipment. If it has been working well for years 'ungrounded' then it can probably tolerate corner grounded.