> Public study copy. Original Xavier note path: `00-09 System/00 Indexes/00.01 JDex.md`. Secrets/credential-like values, if any, are redacted.

# 00.01 JDex

> Master Johnny.Decimal index for the Xavier vault. Use this as the first navigation layer.
> Last updated: 2026-07-25

## 00-09 System

- [[00.01 JDex]] — master Johnny.Decimal index.
- [[00.02 Vault Map]] — human-readable map of the vault areas and rules.
- [[00.03 Vault Log]] — chronological record of meaningful vault operations.
- [[00.04 Migration Map 2026-05-31]] — old path → new path migration map.
- [[02.01 Vault Schema]] — canonical operating schema and filing rules.
- [[02.02 Vault Data Governance Audit 2026-07-04]] — audit on dispersion, redundancy, agility, canonical ownership, source/provenance, and governance risks.
- [[02.03 Vault Governance Follow-up Audit 2026-07-04]] — post-cleanup audit verifying root cleanup, active ID uniqueness, source-folder alignment, link hygiene, and remaining governance debt.
- [[02.04 Vault Governance Guardrails and Night Run]] — active structural-edit preflight and nightly vault quality watchdog.
- [[02.05 Transversal Knowledge Governance and OKF-lite Freshness Model]] — governance model for multi-use material: JD ownership, Obsidian links/backlinks, and selective OKF-lite freshness metadata.

## 10-19 Dashboard

- [[10.01 Xavier Home]] — main vault home note.
- [[10.02 Relationship Dashboard]] — dashboard for Paulo ↔ Xavier collaboration.
- [[10.03 Dashboard Index]] — legacy dashboard index, preserved from the previous vault.
- [[11.01 Active Projects]] — active project overview.
- [[11.02 Task Board]] — lightweight task board.
- [[11.03 Results Log]] — results and delivered value log.
- [[11.04 Decision Register]] — cross-project decision navigation.
- [[11.05 Kanban Operating Model]] — Markdown-first Kanban architecture and rules.
- [[11.06 Master Kanban Board]] — single Task List Kanban visual board with saved filters for PhD, academia, personal, and project work.

## 20-29 Inbox

- [[20.01 Inbox README]] — intake workflow.
- [[20.99 Paulo Scratchpad - Do Not Process]] — Paulo's personal rascunho; excluded from Xavier processing unless explicitly requested.
- `20 Captures/` — notes and requests awaiting processing.
- `21 Files/` — temporary file intake before promotion to Sources or Assets.

## 30-39 Projects

### 31 ShonenSOL

- [[31.01 ShonenSOL Dashboard]] — project hub.
- [[31.02 ShonenSOL Decisions]] — project decision log.
- [[31.03 ShonenSOL Open Questions]] — project open questions.
- [[31.04 ShonenSOL Iterations]] — iteration and learning log.
- [[31.05 ShonenSOL Deployment Playbook]] — deployment workflow.
- `31.06 Reports/` — technical/product/context reports.
- [[31.07 ShonenCollection]] — legacy Shonen collection note.

### 32 Voice Lab

- [[32.01 Voice Lab Dashboard]] — project dashboard.
- [[37.01 PhD Research Dashboard]] — linked PhD research workspace for the scientific project behind the public platform.
- [[32.02 Voice Lab Strategy Overview]] — strategy/navigation hub.
- [[32.03 Voice Lab Decision Register]] — project decisions.
- `32.04 Content/` — content drafts and page copy.

### 33 Xavier

- [[33.01 Xavier Operating Model]] — Xavier/Hermes relationship and vault operating model.
- [[33.02 Xavier Soul]] — mirror of active `/opt/data/SOUL.md`.
- [[33.03 Paulo User Profile]] — mirror of active `/opt/data/memories/USER.md`.
- [[33.04 Xavier Runtime Memory]] — mirror of active `/opt/data/memories/MEMORY.md`.
- [[33.05 Hermes Memory Mirror Policy]] — rules for one-way mirroring and deliberate updates.
- [[33.06 Xavier Memory Dashboard]] — memory governance dashboard.
- [[33.07 Guilherme M2 Extension]] — canonical M2 extension note; human-facing name is Guilherme/GUI.
- [[33.08 HP Monitor Input Toggle]] — HP V24ie G5 input-switching workflow.
- [[33.09 Draft Core-GUI Routing Architecture]] — historical draft routing architecture.
- [[33.10 Xavier Machines Relationship Map.excalidraw]] — visual machine/topology map.
- [[33.11 Xavier Machines Map Context]] — textual companion for the machine map.
- [[33.12 Xavier Decision Register]] — project-specific decision register for Xavier/Hermes operating choices.
- [[33.15 Xavier System Public Explainer]] — long-form public-facing explainer of the Xavier/Hermes operating partnership, vault architecture, governance, memory, projects, and data-rot model.
- [[33.16 Paulo Operating Profile]] — canonical long-form profile for Paulo/Xavier collaboration; runtime summary remains [[33.03 Paulo User Profile]].

### 34 Energy as Useful Work

- [[34.01 Energy as Useful Work Dashboard]] — active research theme on energy/proof-of-work as a lens for history, economy, and social dynamics.
- [[34.02 Seed Conversation and Reading Path]] — initial ChatGPT conversation and suggested reading path.

### 35 Psychology

- [[35.01 Psychology Dashboard]] — active research theme for Paulo's psychology interests.
- [[35.02 Consciousness as Relational or External to the Subject]] — seed note on consciousness as relational, situated, social, embodied, or distributed.

### 36 Career Architecture

- [[36.01 Career Architecture Dashboard]] — supra-project for Paulo's integrated career architecture across management, PhD research, teaching, and applied organizational intervention.
- [[36.02 PhD Motivation and Research Vision]] — durable context for why Paulo is doing the PhD and what phenomenon it serves.
- [[36.03 Teaching Vision]] — Paulo's view of teaching as formation of rigorous thinking.
- [[36.04 Professional Identity and Integrated Mission]] — integrated identity as operations leader, organizational psychologist, lecturer, and applied researcher.
- [[36.05 Source Texts - PhD Teaching Professional Identity]] — Paulo-authored source texts for future reuse and careful personalization.
- [[36.06 LinkedIn Public Writing Playbook]] — Paulo-wide public writing method for LinkedIn; sources stay separate and only reusable rules are promoted.

### 37 PhD Research

- [[37.01 PhD Research Dashboard]] — operational dashboard for the PhD research project.
- [[37.02 Research Question and Phenomenon]] — phenomenon, research questions, and boundaries.
- [[37.03 Conceptual Model]] — model, constructs, mechanisms, and relationships.
- [[37.04 Literature Map]] — literature clusters and reading map.
- [[37.05 Methodology]] — mixed-methods design, sampling, instruments, ethics, and Qualtrics.
- [[37.06 Data and Analysis Log]] — non-sensitive data/analysis decisions and summaries.
- [[37.07 Supervisory Meetings]] — supervision feedback and follow-up.
- [[37.08 Thesis Drafts and Writing]] — proposal/thesis sections and writing decisions.
- [[37.09 Decisions and Open Questions]] — PhD decision register and open questions.
- [[37.10 Source Intake]] — raw or semi-processed PhD material parking area.
- [[37.11 Outputs]] — papers, abstracts, conference submissions, talks, and presentations.
- [[37.12 Project Management Tracker]] — project-management layer for workstreams, milestones, risks, dependencies, and deltas from baseline.
- [[37.13 PhD Kanban Board]] — human-visible Markdown Kanban board for PhD tasks.
- [[37.14 Approved Thesis Project V9 Extract]] — approved university thesis project baseline extract; source-like reference for deltas.
- [[37.15 Thesis Idea Capture Log]] — short retrieval surface for thesis-relevant idea hooks, examples, and possible conceptual entrances.

### 38 Academia

- [[38.01 Academia Dashboard]] — teaching/academic workload dashboard.
- [[38.02 Academia Kanban Board]] — human-visible Markdown Kanban board for academic tasks.
- [[38.10 Universidade Europeia 2026-2027]] — MOC das UCs do ano letivo, com links para scripts e planos de aulas.
- [[38.11 MQCS Scripts]] / [[38.12 MQCS Plano de Aulas]] — Métodos Qualitativos em Ciências Sociais.
- [[38.13 PsiRH Scripts]] / [[38.14 PsiRH Plano de Aulas]] — Psicologia dos Recursos Humanos.
- [[38.15 ADQ Scripts]] / [[38.16 ADQ Plano de Aulas]] — Análise de Dados Qualitativos.
- [[38.17 MIP Scripts]] / [[38.18 MIP Plano de Aulas]] — Metodologias de Investigação em Psicologia.
- [[38.19 Dissertação Scripts 25_26]] / [[38.20 Dissertação Plano de Sessões 25_26]] — UC Dissertação, tutoria/orientação 2025-2026.
- [[38.21 Orientação - Joana Rita Guerreiro 25_26]] — acompanhamento individual de dissertação.
- [[38.22 Juri - Ana Catarina Oliveira 25_26]] — júri de provas públicas / relatório de avaliação.
- [[38.23 Juri - Samantha Simões 25_26]] — júri de provas públicas / relatório de avaliação.
- [[38.24 Dissertação - Protocolo de Avaliação MOD-037]] — protocolo canónico para avaliação documental MOD-037 e governance de avaliações de dissertação.
- [[38.25 Orientação - Defesa - Vanessa Henriques]] — avaliação documental proposta MOD-037 para dissertação orientada por Paulo.
- [[38.26 Orientação - Defesa - Gabriela Verta]] — avaliação documental proposta MOD-037 para dissertação orientada por Paulo.

### 39 Personal

- [[39.01 Personal Dashboard]] — personal/life operations dashboard.
- [[39.02 Personal Kanban Board]] — human-visible Markdown Kanban board for personal tasks.

## 40-49 Knowledge

- `41 Concepts/` — reusable concepts and frameworks.
  - [[41.02 General Idea Capture Log]] — low-friction shelf for standalone idea seeds not yet tied to a project.
  - [[41.03 POSIWID - Purpose of a System Is What It Does]] — concept seed on Stafford Beer/POSIWID as a lens for effective system purpose.
- `42 Research/` — academic maps, methodology notes, research questions.
- `43 Syntheses/` — substantial answers, comparisons, filed reports.
- `44 Resources/` — imported briefs, manuals, reusable reference notes.

Key notes:
- [[LLM Wiki]]
- [[Research Map]]
- [[Illusory Agreement Research Map]]
- [[LPA Methodology Map]]
- [[Voice Lab - PhD Research Page Complete Draft]]
- [[Paulo ChatGPT Migration Brief]]

## 50-59 Operations

### 51 Hermes

- [[51.01 Hermes Agent]] — core Hermes/Xavier note.
- [[51.02 Hermes Operating Notes]] — operating notes.
- [[51.03 Hermes Skills]] — skills-related notes.
- [[51.04 Xavier Replication Runbook]] — rebuild/migration runbook for recreating Xavier/Hermes.
- [[51.06 Bitwarden Credential Access Manual]] — future credential access design.
- [[51.07 Messaging Targets Registry]] — non-secret Telegram/Discord routing map for crons, watchdogs, and agent workstreams.
- [[51.08 Gateway Emergency Recovery]] — out-of-band Gateway recovery notifier and mobile SSH runbook.
- [[51.09 Hermes Update Runbook]] — update checklist and July 2026 browser-port/container lessons.

### 52 VPS

- [[52.01 Run Hermes CLI from Phone with Termius]] — mobile SSH/tmux access.
- [[52.04 Xavier Local Gemma Fallback]] — local model fallback setup.

### 53 Sync & Backup

- [[53.01 Syncthing Setup]] — Syncthing notes.
- [[53.02 Obsidian Sync Setup]] — Obsidian Sync notes.
- [[53.03 Hermes Backups]] — backup setup and restore notes.
- [[53.04 Xavier Emergency Recovery Plan]] — emergency recovery plan.

## 60-69 Sources

- `61 Articles/` — web articles, gists, clipped pages; use [[61.00 Article Source Box]] for low-friction article/link capture before promoting anything to standalone source notes.
- `62 Chats/` — chat transcripts.
- `63 Documents/` — source documents and imports.
- `64 Media/` — source media.
- `65 Exports/` — exported chats/sessions.

## 70-79 Assets

- `70 Asset Inbox/` — default Obsidian attachment target.
- `71 Images/` — images and generated graphics.
- `72 Documents/` — attached PDFs/docs that are not source material.
- `73 Screenshots/` — screenshots.
- `74 Audio/` — audio files.
- `75 Video/` — video files.
- `76 Exports/` — visual/data exports used as assets.

## 90-99 Archive

- `91 Old Projects/` — inactive projects.
- `92 Old Notes/` — old/default/superseded notes.
- `93 Superseded Reports/` — replaced reports.