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is there a way to use stack references in `Pulumi.stack.yaml`?

You can use Pulumi ESC for this
<https://www.pulumi.com/docs/esc/|https://www.pulumi.com/docs/esc/>

However I can't find the docs for how to do it anymore

I think this is the page you need: <https://www.pulumi.com/docs/esc/providers/pulumi-stacks/>

There was a page that outlined everything, including the Pulumi stack setup. Was it removed?

Ah, here: <https://www.pulumi.com/docs/esc/environments/#using-environments-with-pulumi-iac|https://www.pulumi.com/docs/esc/environments/#using-environments-with-pulumi-iac>