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Yes, though it's still considered an experimental feature. You do it through Pulumi.yaml. Let me find the syntax for you...

Add a `nodeargs` property to the `runtime:options` object. So you need a block like this in your Pulumi.yaml:
```runtime:
  name: nodejs
  options:
    nodeargs: -r ./pnp.cjs```

You might learn more from the code..
<https://github.com/pulumi/pulumi/blob/d7393a3c24af7b12ec8bcde7e8acdf9e60441a60/sdk/nodejs/cmd/pulumi-language-nodejs/main.go#L93>

Good to know this option exists. I ended up solving my issue in a different way. Because the pulumi node SDK depends on the existance of `node_modules` on the filesystem, just `-r ./.pnp.cjs` isn't enough, but using yarn's pnpify shim is. <https://github.com/pulumi/pulumi/issues/3586#issuecomment-782589776>