Check for all false positives, false negatives, warnings and errors in CI/CD and fix them all

[konard]

Latest default-branch CI/CD runs

Workflow	Status	Conclusion	Run
JS CI/CD Pipeline	completed	failure	run

Use all the best practices from CI/CD templates (check full file tree to compare for all GitHub workflow and CI/CD scripts file), if the same issue is found in template report issue also in templates:

• https://github.com/link-foundation/js-ai-driven-development-pipeline-template
• https://github.com/link-foundation/rust-ai-driven-development-pipeline-template

We should compare all files, so we don't have more CI/CD errors in the future and reuse all the best practices from these templates.

Follow the CI/CD best practices collected in https://github.com/link-assistant/hive-mind/blob/main/docs/CI-CD-BEST-PRACTICES.md.

Please plan and execute everything in this single pull request, you have unlimited time and context, as context auto-compacts and you can continue indefinitely, until it is each and every requirement fully addressed, and everything is totally done.

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Context collected by /fix --ci-cd

• Repository: link-assistant/agent
• Default branch: main
• Latest commit: f915209 (commit) — Merge pull request fix: share Git objects and prune orphan snapshots #300 from link-assistant/issue-298-563f08b7679d
• CI/CD runs found: 1 (1 not passing)

Detected languages

• TypeScript — 53.8%
• JavaScript — 30.0%
• Rust — 15.6%
• Shell — 0.6%

Recommended CI/CD templates

Apply the best practices from these templates, in priority order (most-used language first):

1. JavaScript / TypeScript — link-foundation/js-ai-driven-development-pipeline-template (detected: TypeScript, JavaScript)
2. Rust — link-foundation/rust-ai-driven-development-pipeline-template (detected: Rust)

Other detected languages without a dedicated template: Shell.