diff --git a/website/docs/cli-reference.md b/website/docs/cli-reference.md
index d5a2cd4..94e85d7 100644
--- a/website/docs/cli-reference.md
+++ b/website/docs/cli-reference.md
@@ -18,6 +18,8 @@ title: CLI Reference
 | `nightshift status` | View run history |
 | `nightshift logs` | Stream or export logs |
 | `nightshift stats` | Token usage statistics |
+| `nightshift report` | Read run reports |
+| `nightshift busfactor` | Analyze ownership concentration |
 | `nightshift daemon` | Background scheduler |
 
 ## Run Options
@@ -83,10 +85,144 @@ nightshift budget history -n 10
 nightshift budget calibrate
 ```
 
+## Reports and Diagnostics
+
+### `nightshift status`
+
+Shows recent run history, or a summary of the current day's activity.
+
+```bash
+nightshift status
+nightshift status -n 20
+nightshift status --today
+```
+
+| Flag | Default | Description |
+|------|---------|-------------|
+| `--last`, `-n` | `5` | Show the last N runs |
+| `--today` | `false` | Show today's activity summary instead of run history |
+
+### `nightshift logs`
+
+Reads the Nightshift log files, with filtering by time, level, component, and message text.
+
+```bash
+nightshift logs                                  # Last 50 lines
+nightshift logs -n 200                           # Last 200 lines
+nightshift logs --follow                         # Stream new lines
+nightshift logs --level warn                     # Warnings and errors only
+nightshift logs --component scheduler            # Filter by component
+nightshift logs --match "budget"                 # Filter by message text
+nightshift logs --since 2026-01-15 --until 2026-01-16
+nightshift logs --summary                        # Counts instead of lines
+nightshift logs --export ./nightshift-logs.txt   # Write to a file
+```
+
+| Flag | Default | Description |
+|------|---------|-------------|
+| `--tail`, `-n` | `50` | Number of log lines to show |
+| `--follow`, `-f` | `false` | Follow log output as new lines arrive |
+| `--export`, `-e` | _(none)_ | Export logs to the given file |
+| `--since` | _(none)_ | Start time (`YYYY-MM-DD`, `YYYY-MM-DD HH:MM`, or RFC3339) |
+| `--until` | _(none)_ | End time (same formats as `--since`) |
+| `--level` | _(all)_ | Minimum log level: `debug`, `info`, `warn`, `error` |
+| `--component` | _(all)_ | Filter by component substring |
+| `--match` | _(all)_ | Filter by message substring |
+| `--summary` | `false` | Show a summary only, without individual lines |
+| `--raw` | `false` | Show raw log lines without formatting |
+| `--no-color` | `false` | Disable ANSI colors |
+| `--path` | _(config)_ | Override the log directory |
+
+### `nightshift stats`
+
+Aggregate token and run statistics across all recorded runs.
+
+```bash
+nightshift stats
+nightshift stats --period last-7d
+nightshift stats --json
+```
+
+| Flag | Default | Description |
+|------|---------|-------------|
+| `--period`, `-p` | `all` | Time period: `all`, `last-7d`, `last-30d`, `last-night` |
+| `--json` | `false` | Output as JSON |
+
+### `nightshift report`
+
+Structured reports about what recent runs actually did.
+
+```bash
+nightshift report                                # Overview of last night
+nightshift report --report tasks                 # Break down by task
+nightshift report --report projects --period last-7d
+nightshift report --format markdown              # Paste-ready output
+nightshift report --format json
+nightshift report --since 2026-01-15 --until 2026-01-16
+nightshift report --runs 0 --paths               # All runs, with file paths
+```
+
+| Flag | Default | Description |
+|------|---------|-------------|
+| `--report`, `-r` | `overview` | Report type: `overview`, `tasks`, `projects`, `budget`, `raw` |
+| `--period`, `-p` | `last-night` | Time period: `last-night`, `last-run`, `last-24h`, `last-7d`, `today`, `yesterday`, `all` |
+| `--runs`, `-n` | `3` | Max runs to include (`0` = all) |
+| `--since` | _(none)_ | Start time (`YYYY-MM-DD`, `YYYY-MM-DD HH:MM`, or RFC3339) |
+| `--until` | _(none)_ | End time (same formats as `--since`) |
+| `--format` | `fancy` | Output format: `fancy`, `plain`, `markdown`, `json` |
+| `--no-color` | `false` | Disable ANSI colors |
+| `--paths` | `false` | Include report and log file paths |
+| `--max-items` | `5` | Max highlights shown per run |
+
+### `nightshift busfactor`
+
+Analyzes code ownership concentration from git history. Reports the bus factor
+(minimum contributors behind 50% of commits), the Herfindahl index, the Gini
+coefficient, and an overall risk level.
+
+The target path can be given either as a positional argument or via `--path`.
+When neither is set, the current directory is used.
+
+```bash
+nightshift busfactor
+nightshift busfactor ~/code/myapp
+nightshift busfactor --path ~/code/myapp
+nightshift busfactor --since 2026-01-01
+nightshift busfactor --file "internal/orchestrator/*"
+nightshift busfactor --json
+nightshift busfactor --save
+```
+
+| Flag | Default | Description |
+|------|---------|-------------|
+| `--path`, `-p` | _(current directory)_ | Repository or directory path |
+| `--file`, `-f` | _(whole repo)_ | Analyze a specific file or pattern |
+| `--since` | _(none)_ | Start date (RFC3339 or `YYYY-MM-DD`) |
+| `--until` | _(none)_ | End date (RFC3339 or `YYYY-MM-DD`) |
+| `--json` | `false` | Output as JSON |
+| `--save` | `false` | Save results to the database |
+| `--db` | _(config)_ | Database path; uses the configured path when unset |
+
+### `nightshift doctor`
+
+Runs diagnostics against your configuration and environment. It takes no flags.
+
+```bash
+nightshift doctor
+```
+
 ## Global Flags
 
 | Flag | Description |
 |------|-------------|
 | `--verbose` | Verbose output |
+| `--help`, `-h` | Show help for that command |
 | `--provider` | Select provider (claude, codex) |
 | `--timeout` | Execution timeout (default 30m) |
+
+`--version` / `-v` is registered on the root command only, so it is not accepted by
+subcommands:
+
+```bash
+nightshift --version
+```