Melvin Alvarez cafb3476a4 docs: fix 404 broken links ...

- Replace non-existent Python examples with actual files
- Fix all placeholder yourusername URLs to ThotDjehuty
- Remove references to non-existent optimal_control.md theory doc
- Update examples to reference: hmm_regime_detection.py, parallel_de_benchmark.py, polaroid_optimizr_integration.py, timeseries_integration.py

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theory

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COMPLETION_SUMMARY.md

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DEVELOPMENT.md

docs: fix 404 broken links

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differential_evolution.md

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grid_search.md

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hmm.md

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information_theory.md

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mcmc.md

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REFACTORING.md

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