Deploying project to a new scratch org generate warnings for GlobalValueSet and fail to track them

### Summary
When deploying sfdx project with global value sets to a new scratch org, the command generate some warnings and the global value sets are not properly tracked in the local source tracking in `.sf/orgs//maxRevision.josn`.

The warnings generated in the first code deployment to a new scratch org:
```sh
Deploying v60.0 metadata to test-vm9jlqkus3h1@example.com using the v60.0 SOAP API.
Deploy ID: 0AfPt0000062B5ZKAU
Status: In Progress | ████████████████████████████████████████ | 3/3 Components
Warning: GlobalValueSet, Approval_Statuses__gvs, returned from org, but not found in the local project
```

When trying to deploy again using `sf project deploy start`, the global value sets are listed as conflicts:
```sh
STATE FULL NAME TYPE FILE PATH
──────── ───────────────── ────────────── ───────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
Conflict Approval_Statuses GlobalValueSet /Users/me/MyProject/force-app/main/default/globalValueSets/Approval_Statuses.globalValueSet-meta.xml
Error (1): There are changes in the org that conflict with the local changes you're trying to deploy.
```

At this stage, the source code tracking in `.sf/orgs//maxRevision.josn` has `"lastRetrievedFromServer": null` for the global value sets:
```json
"GlobalValueSet__Approval_Statuses": {
"serverRevisionCounter": 2,
"lastRetrievedFromServer": null,
"memberType": "GlobalValueSet",
"isNameObsolete": false
},
```

The conflict can be resolve by forcing a deploy with `sf project deploy start --ignore-conflicts`, and the source tracking is updated:
```json
"GlobalValueSet__Approval_Statuses": {
"serverRevisionCounter": 2,
"lastRetrievedFromServer": 2,
"memberType": "GlobalValueSet",
"isNameObsolete": false
},
```

The only clue I can find for this is in the global value set metadata [documentation](https://developer.salesforce.com/docs/atlas.en-us.api_meta.meta/api_meta/meta_globalvalueset.htm):
> Any global value set created in API version 57.0 or later automatically has the __gvs suffix appended to the developer name. When you make any CRUD-based call with the GlobalValueSet type, you must append the suffix to the fullName field when you reference the type.

### Steps To Reproduce

Use the following project: https://github.com/hagai-shatz/MyProject
- Create a new scratch org using `sf org create scratch -f ./config/project-scratch-def.json --alias test --no-namespace`
- Deploy the code using `sf project deploy start -o test` and see the reported warning
- Try to deploy the code again and see the conflict in the global value set
- Force deploy to resolve the conflict

### Expected result
First code deployment to the new scratch org to properly track the version of global value sets.

### Actual result
Global value sets fail to be tracked in first deployment of the code.

### System Information
```json
{
"architecture": "darwin-arm64",
"cliVersion": "@salesforce/cli/2.40.7",
"nodeVersion": "node-v20.13.1",
"osVersion": "Darwin 23.4.0",
"rootPath": "/Users/hagai/.nvm/versions/node/v20.13.1/lib/node_modules/@salesforce/cli",
"shell": "zsh",
"pluginVersions": [
"@oclif/plugin-autocomplete 3.0.16 (core)",
"@oclif/plugin-commands 3.3.1 (core)",
"@oclif/plugin-help 6.0.21 (core)",
"@oclif/plugin-not-found 3.1.7 (core)",
"@oclif/plugin-plugins 5.0.18 (core)",
"@oclif/plugin-search 1.0.23 (core)",
"@oclif/plugin-update 4.2.9 (core)",
"@oclif/plugin-version 2.0.17 (core)",
"@oclif/plugin-warn-if-update-available 3.0.16 (core)",
"@oclif/plugin-which 3.1.8 (core)",
"@salesforce/cli 2.40.7 (core)",
"apex 3.1.11 (core)",
"auth 3.6.5 (core)",
"data 3.3.2 (core)",
"deploy-retrieve 3.6.8 (core)",
"info 3.2.4 (core)",
"limits 3.3.4 (core)",
"marketplace 1.2.4 (core)",
"org 4.1.5 (core)",
"packaging 2.4.1 (core)",
"schema 3.3.4 (core)",
"settings 2.2.3 (core)",
"sobject 1.3.6 (core)",
"source 3.3.5 (core)",
"telemetry 3.3.4 (core)",
"templates 56.2.4 (core)",
"trust 3.6.7 (core)",
"user 3.5.4 (core)",
"@salesforce/sfdx-scanner 3.23.0 (user)"
]
}
```

### Additional information