docs: the handbook follows the three layers: swarm, hives, agents

The handbook's sections were agent-lifecycle, integrations, swarm, tools,
trust-boundary and web-ui, which do not follow how the system is built, so a
reader could not tell which layer a page is about. Its pages now sit in
swarm/, hives/ and agents/, with the accounts an agent can hold outside the
system in external-accounts/.

- swarm/: forge, matrix and the knowledge repo join the swarm pages, and so
  does the swarmctl reference.
- hives/: the dashboard, hivectl and its reference, and the operator/agent
  boundary, with a README that takes over the old web-ui and tools pages.
- agents/: the roster, persistence, config changes, the agent's own web page
  (was web-ui/agent) and the security model, with a README.
- external-accounts/: GitHub and GitLab.

Pages are moved whole; none is split yet. Every reference follows: relative
links in the docs, `docs/2-handbook/...` paths in code comments, the nix
checks that regenerate the CLI references and the ignore list, and docs/README.md,
whose handbook section is now by layer.

frontend/packages/agent/src/agent.css

@@ -16,7 +16,7 @@
 
 /* ─── full-screen layout overrides ─────────────────────────────────
    The agent page mounts a full-viewport terminal under a fixed
-   frosted-glass header. See docs/2-handbook/web-ui/agent.md::Per-agent
+   frosted-glass header. See docs/2-handbook/agents/web-page.md::Per-agent
    page for the layer / pill / side-panel structure; rules below
    override the in-page defaults from @hive/shared. */
 
@@ -184,7 +184,7 @@ h3 {
 }
 .agent-icon {
   /* Square identity anchor — explicit 5em sizing + align-self.
-     See docs/2-handbook/web-ui/agent.md::Per-agent page (Agent icon) for the
+     See docs/2-handbook/agents/web-page.md::Per-agent page (Agent icon) for the
      intrinsic-dim-pushes-parent-flex-open + sticks-to-top
      rationale. */
   width: 5em;
@@ -594,7 +594,7 @@ pre.diff {
 /* Tail pill (↓ N new): z-index bumped above the floating chrome so the
    pill sits on the top layer instead of being clipped by it. (Pill is anchored in
    `.agent-main` rather than `.terminal-wrap` — see
-   docs/2-handbook/web-ui/agent.md::Per-agent page Terminal-wrap paragraph for the
+   docs/2-handbook/agents/web-page.md::Per-agent page Terminal-wrap paragraph for the
    backdrop-filter stacking-context rationale.) */
 .agent-main .tail-pill {
   bottom: 0.6em;

frontend/packages/agent/src/components/Header.tsx

@@ -50,7 +50,7 @@ export interface HeaderProps {
    * a variable pill count) grows to fit badges+pills together, keeping
    * the header a stable height even on widescreen. Meta-nav
    * (`<MetaNav>`) lives here too, as a fixed-size trigger, not an
-   * inline link list in the title row (docs/2-handbook/web-ui/agent.md). */
+   * inline link list in the title row (docs/2-handbook/agents/web-page.md). */
   pills?: ComponentChildren;
 }
 

frontend/packages/agent/src/index.html

@@ -19,7 +19,7 @@
   <body class="agent-shell">
     <!-- The Preact rewrite owns everything below — header, terminal,
        side panel. See main.tsx/Root.tsx for the component
-       tree; docs/2-handbook/web-ui/agent.md for the design. -->
+       tree; docs/2-handbook/agents/web-page.md for the design. -->
     <div id="preact-root"></div>
 
     <script type="module" src="static/main.js" defer></script>

frontend/packages/agent/src/screen.html

@@ -36,7 +36,7 @@
     <script>
       // Minimal RFB-over-WebSocket renderer. Connects to `screen/ws` on
       // the same host; the harness relays raw RFB bytes to the VNC server
-      // running inside the container. See docs/2-handbook/web-ui/agent.md (GET /screen)
+      // running inside the container. See docs/2-handbook/agents/web-page.md (GET /screen)
       // for the design rationale + canvas-sizing implementation notes.
 
       (function () {
@@ -61,7 +61,7 @@
         });
 
         // --- Fit-to-window toggle ---
-        // See docs/2-handbook/web-ui/agent.md::Per-agent endpoints (GET /screen) for the
+        // See docs/2-handbook/agents/web-page.md::Per-agent endpoints (GET /screen) for the
         // localStorage persistence + canvas-intrinsic-resolution +
         // pointer-rescale model.
         let fitMode = localStorage.getItem("screen-fit") !== "off";
@@ -105,7 +105,7 @@
         // Sends an RFB SetDesktopSize request so the VNC server (weston)
         // changes its actual output resolution to match the browser
         // viewport — sharper than fit-mode's CSS downscale. Gated on the
-        // server's ExtendedDesktopSize advert; see docs/2-handbook/web-ui/agent.md::Per-agent
+        // server's ExtendedDesktopSize advert; see docs/2-handbook/agents/web-page.md::Per-agent
         // endpoints (GET /screen).
         let extDesktopSupported = false;
         let screenId = 1; // captured from the server's ExtendedDesktopSize advert

frontend/packages/agent/src/types.ts

@@ -35,7 +35,7 @@ export interface AgentState {
 // in the agent page header (stats/screen/forge/config + any
 // `services.hyperhive.agent.dashboardLinks` extras). `agent_links()` on the backend
 // is the single source of truth for what links an agent exposes; see
-// docs/2-handbook/web-ui/agent.md::Header for the kind → URL resolution table.
+// docs/2-handbook/agents/web-page.md::Header for the kind → URL resolution table.
 export interface AgentLink {
   url: string;
   icon: string;

frontend/packages/dashboard/src/agents.js

@@ -1,7 +1,7 @@
 // 4G3NTS (containers) domain — extracted from tabs.js.
 // Agent topology, container-row rendering, selection bar, and all
 // live-update apply handlers for container-state, transient, and
-// job-queue-rollup ops. See docs/2-handbook/web-ui/dashboard.md::Container row for the
+// job-queue-rollup ops. See docs/2-handbook/hives/dashboard.md::Container row for the
 // rendering contract.
 
 import { $, form, fmtAgeSecs } from "./common.js";
@@ -37,14 +37,14 @@ const containerRowCache = new Map();
 // by agent name -> Map<transient_kind, since_unix>: an agent can hold
 // several pills at once (every *running* node naming the agent lights
 // one now, not just a curated "worth surfacing" subset — see
-// docs/2-handbook/web-ui/dashboard.md::Container row), keyed the same way the backend's
+// docs/2-handbook/hives/dashboard.md::Container row), keyed the same way the backend's
 // own tombstone map is, `(agent, label)`, so a clear only removes the
 // specific pill it names rather than guessing. `since_unix` is
 // wall-clock so the elapsed-seconds badge ticks without polling.
 const transientsState = new Map();
 
 // In-memory set of selected agent logical names backing the sticky
-// #selection-bar. See docs/2-handbook/web-ui/dashboard.md::Selection bar for the
+// #selection-bar. See docs/2-handbook/hives/dashboard.md::Selection bar for the
 // interaction model (icon-click toggle, Esc/clear button drop,
 // tab-gated visibility).
 const selectionState = new Set();
@@ -225,7 +225,7 @@ function derivePortConflicts(containers) {
 }
 
 // ─── container ordering ──────────────────────────────────────────────────────
-// Flat alphabetical sort — see docs/2-handbook/web-ui/dashboard.md::C0NTAINERS.
+// Flat alphabetical sort — see docs/2-handbook/hives/dashboard.md::C0NTAINERS.
 
 function sortedContainerRows(containers) {
   // Close any open context menu before replacing the DOM tree — the
@@ -285,7 +285,7 @@ function buildContainerLi(c, opts) {
   // Agent icon: 5em square wrapper with an absolutely-positioned
   // <img> + fire-and-forget load with /favicon.svg fallback. The
   // wrapper doubles as the selection toggle (click / keyboard).
-  // See docs/2-handbook/web-ui/dashboard.md::Container row for the layout + load-strategy
+  // See docs/2-handbook/hives/dashboard.md::Container row for the layout + load-strategy
   // rationale.
   const iconImg = el("img", { class: "container-icon-img", alt: "" });
   const icon = el(
@@ -478,7 +478,7 @@ function buildContainerLi(c, opts) {
   // dashboard-state fetch above.
   if (pending.length) {
     // One badge per pill — an agent can carry several transients at
-    // once now (see docs/2-handbook/web-ui/dashboard.md::Container row), each rendered
+    // once now (see docs/2-handbook/hives/dashboard.md::Container row), each rendered
     // independently rather than collapsed into one label.
     for (const label of pending) {
       head.append(
@@ -561,7 +561,7 @@ function buildContainerLi(c, opts) {
 
   // Per-card action buttons (R3ST4RT / ST0P / ST4RT / R3BU1LD /
   // DESTR0Y / PURG3) live on the selection bar, not here — see
-  // docs/2-handbook/web-ui/dashboard.md::Selection bar. The contextual `needs update ↻`
+  // docs/2-handbook/hives/dashboard.md::Selection bar. The contextual `needs update ↻`
   // chip in the head row stays — it's a state-hint, not an
   // action button.
 
@@ -632,7 +632,7 @@ export function renderContainers(s) {
   // TCP fallback — the gateway proxies the prefix to the per-agent
   // harness (unix-domain via `agent-sockets.json`, or a computed TCP
   // loopback port while the socket marker is absent). See
-  // `docs/2-handbook/web-ui/dashboard.md::Container row` + `docs/4-implementation/networking/gateway.md::Vhost map`.
+  // `docs/2-handbook/hives/dashboard.md::Container row` + `docs/4-implementation/networking/gateway.md::Vhost map`.
   const gatewayLinks = !!(s && s.gateway_enabled);
   // Forge public URL: state.forge_public_url (set by the NixOS module
   // from services.hyperhive.swarm.forge.publicUrl) or null — never guessed
@@ -658,7 +658,7 @@ export function renderContainers(s) {
     // full stop (mara, on review: "remove the per agent pending stuff -
     // only show what is running"; rendered one badge per pill — mara,
     // earlier: "show all running nodes that name the agent"). See
-    // docs/2-handbook/web-ui/dashboard.md::Container row.
+    // docs/2-handbook/hives/dashboard.md::Container row.
     const transientKindsMap = transientsState.get(c.name);
     // Sorted for stable badge order across renders — Map iteration
     // order is insertion order, which shifts as pills clear/re-add.
@@ -725,7 +725,7 @@ export function renderContainers(s) {
 
 // ─── selection bar ───────────────────────────────────────────────────────────
 // Sticky-bottom strip; visible when >=1 agent selected on the 4G3NTS
-// tab. See docs/2-handbook/web-ui/dashboard.md::Selection bar for the interaction model
+// tab. See docs/2-handbook/hives/dashboard.md::Selection bar for the interaction model
 // and the per-action availability rules (disabled-with-tooltip for
 // actions that don't apply to the full selection). Actions POST per
 // agent in a loop (endpoints are individually idempotent /

frontend/packages/dashboard/src/common.css

@@ -247,7 +247,7 @@ code {
 }
 /* M0V3 affordance (selection bar) — mauve reads as "structural
    change" rather than the destructive red / amber chrome of
-   destroy / rebuild. See docs/2-handbook/web-ui/dashboard.md::Selection bar. */
+   destroy / rebuild. See docs/2-handbook/hives/dashboard.md::Selection bar. */
 .btn-move {
   color: var(--purple);
   border-color: var(--purple);

frontend/packages/dashboard/src/dashboard.css

@@ -12,7 +12,7 @@
 
 /* ─── tabbed dashboard chrome ──────────────────────────────────────
    Top-of-page sticky header with banner + tab strip. SSE stays
-   alive across tab switches. See docs/2-handbook/web-ui/dashboard.md::Chrome header + Tab strip for the
+   alive across tab switches. See docs/2-handbook/hives/dashboard.md::Chrome header + Tab strip for the
    routing model. */
 
 body.dashboard-shell {

frontend/packages/dashboard/src/index.html

@@ -165,7 +165,7 @@
 
     <!-- Selection action bar. Sticky-bottom strip that slides into
        view when one or more agent cards is selected (click the icon
-       to toggle). See docs/2-handbook/web-ui/dashboard.md::Selection bar for the bulk
+       to toggle). See docs/2-handbook/hives/dashboard.md::Selection bar for the bulk
        action gating + clear semantics. -->
     <div
       id="selection-bar"

frontend/packages/shared/src/side-panel/hive-side-panel.js

@@ -31,7 +31,7 @@ import { el } from "../dom.js";
 import { attachShadowCss } from "../shadow-css.js";
 import sidePanelCss from "./hive-side-panel.css";
 
-// See docs/2-handbook/web-ui/agent.md::Side panel for the hit-strip + pointer-capture +
+// See docs/2-handbook/agents/web-page.md::Side panel for the hit-strip + pointer-capture +
 // localStorage persistence model; CSS clamps the stored value to min
 // 320px / max 96vw and out-of-range stored values are dropped silently.
 // Shared by both packages deliberately — see module header.