docs: sort the top-level directories into five sections by what the reader wants
Every docs directory moves under 1-getting-started, 2-handbook, 4-implementation or 5-project; the options reference (section 3) comes from the website and has no directory here. trust-boundary stays whole under the handbook for now. web-ui, swarm and tools split between handbook and implementation, and the command-line references move to 2-handbook/reference. Links, path references in code and nix, and the docs index follow the moves; no page content changes.
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# generator, not the formatter, owns these files' layout. Every CLI
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# reference doc belongs here — adding one and forgetting this line is
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# what made swarmctl's fail.
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docs/tools/hivectl-cli.md
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docs/tools/swarmctl-cli.md
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docs/tools/forge-cli.md
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docs/tools/swarm-logs-cli.md
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docs/tools/swarm-metrics-cli.md
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docs/2-handbook/reference/hivectl-cli.md
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docs/2-handbook/reference/swarmctl-cli.md
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docs/2-handbook/reference/forge-cli.md
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docs/2-handbook/reference/swarm-logs-cli.md
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docs/2-handbook/reference/swarm-metrics-cli.md
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# Files with multi-line list-item continuations that prettier strips to col 0.
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# prettier's `proseWrap: "preserve"` prevents prose reflow but not list-item
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# indentation normalisation, so these files need manual re-wrap before
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# adding them back to the formatter scope.
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AGENTS.md
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docs/agent-lifecycle/config-changes.md
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docs/process/conventions.md
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docs/networking/gateway.md
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docs/integrations/matrix.md
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docs/agent-lifecycle/persistence.md
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docs/web-ui/terminal-rendering.md
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docs/tools/forge.md
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docs/tools/matrix.md
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docs/turn-loop/README.md
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docs/web-ui/agent.md
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docs/web-ui/dashboard.md
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docs/2-handbook/agent-lifecycle/config-changes.md
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docs/5-project/process/conventions.md
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docs/4-implementation/networking/gateway.md
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docs/2-handbook/integrations/matrix.md
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docs/2-handbook/agent-lifecycle/persistence.md
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docs/4-implementation/web-ui/terminal-rendering.md
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docs/2-handbook/tools/forge.md
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docs/2-handbook/tools/matrix.md
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docs/4-implementation/turn-loop/README.md
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docs/2-handbook/web-ui/agent.md
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docs/2-handbook/web-ui/dashboard.md
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