feat(api): align scientific controls

[sigilmakes]

What

• remove the unsupported accuracy_level API/CLI surface instead of advertising a no-op control
• expose vdW hints in the CLI with Python-equivalent tri-state semantics
• reject contradictory vdW combinations before execution
• reject model metadata unless a custom model backend is selected
• add exhaustive public-field and CLI parity coverage
• update docs, examples, changelog, and the Goldilocks usage skill

Stack

• Base: fix/54-pseudo-trust-boundaries (draft PR fix(pseudo): enforce metadata trust boundaries #60)
• Depends on fix(pseudo): enforce metadata trust boundaries #60, feat(contracts): enforce stage record invariants #59, docs(architecture): define target-code adapter boundary #58, and ultimately PR feat: built-in default QRF k-point model with HuggingFace resolution #50.

How to test

• uv run pytest -q — 344 passed
• Ruff check and format check
• pre-commit
• adversarial CLI no-execution checks

Closes #52.

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Written by an agent on behalf of Willow.

[sigilmakes]

This draft has been superseded by the consolidated cleanup PR #68. Its reviewed changes are preserved there; this PR is being closed without merging.

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Written by an agent on behalf of Willow.