diff --git a/internal/config/reload_hooks_test.go b/internal/config/reload_hooks_test.go
new file mode 100644
index 0000000000000000000000000000000000000000..a21dfa89a0b7c61260a96f800acc34a18a2b086b
--- /dev/null
+++ b/internal/config/reload_hooks_test.go
@@ -0,0 +1,102 @@
+package config_test
+
+import (
+	"context"
+	"os"
+	"path/filepath"
+	"testing"
+
+	"github.com/charmbracelet/crush/internal/config"
+	"github.com/charmbracelet/crush/internal/hooks"
+	"github.com/stretchr/testify/require"
+)
+
+// TestReloadFromDisk_CompilesHookMatchers is a regression test for a bug
+// where ReloadFromDisk dropped the compiled matcher regex on every hook,
+// causing a matcher like "^bash$" to match every tool call after any
+// SetConfigField-triggered reload.
+//
+// The assertion is phrased in terms of observable Runner behavior (not
+// internal field presence) so it stays valid if the Runner later owns
+// matcher compilation itself.
+func TestReloadFromDisk_CompilesHookMatchers(t *testing.T) {
+	// No t.Parallel(): we Setenv HOME/XDG_CONFIG_HOME to isolate from the
+	// developer's real global config, which may define its own hooks.
+	isolated := t.TempDir()
+	t.Setenv("HOME", isolated)
+	t.Setenv("XDG_CONFIG_HOME", filepath.Join(isolated, ".config"))
+	t.Setenv("XDG_DATA_HOME", filepath.Join(isolated, ".local", "share"))
+
+	workDir := t.TempDir()
+	dataDir := t.TempDir()
+	configPath := filepath.Join(workDir, "crush.json")
+	cfgJSON := `{
+        "hooks": {
+            "PreToolUse": [
+                {"matcher": "^bash$", "command": "exit 0"}
+            ]
+        }
+    }`
+	require.NoError(t, os.WriteFile(configPath, []byte(cfgJSON), 0o600))
+
+	store, err := config.Load(workDir, dataDir, false)
+	require.NoError(t, err)
+
+	// Sanity: hook filtering works immediately after Load.
+	assertHookFilters(t, store)
+
+	require.NoError(t, store.ReloadFromDisk(context.Background()))
+
+	// The actual regression check: filtering must still work after a
+	// reload, not silently collapse to match-everything.
+	assertHookFilters(t, store)
+}
+
+// assertHookFilters builds a Runner from the store's current hooks and
+// verifies the "^bash$" matcher rejects a non-bash tool while accepting
+// bash.
+func assertHookFilters(t *testing.T, store *config.ConfigStore) {
+	t.Helper()
+	preHooks := store.Config().Hooks[hooks.EventPreToolUse]
+	require.Len(t, preHooks, 1)
+
+	runner := hooks.NewRunner(preHooks, t.TempDir(), t.TempDir())
+
+	nonMatch, err := runner.Run(context.Background(), hooks.EventPreToolUse, "sess", "view", `{}`)
+	require.NoError(t, err)
+	require.Equal(t, 0, nonMatch.HookCount, "view must not match ^bash$ matcher")
+
+	match, err := runner.Run(context.Background(), hooks.EventPreToolUse, "sess", "bash", `{}`)
+	require.NoError(t, err)
+	require.Equal(t, 1, match.HookCount, "bash must match ^bash$ matcher")
+}
+
+// TestSetConfigField_AutoReload_PreservesHookMatcherFiltering verifies the
+// dominant real-world trigger path: config writes call autoReload,
+// autoReload calls ReloadFromDisk, and hook matching must remain correct.
+func TestSetConfigField_AutoReload_PreservesHookMatcherFiltering(t *testing.T) {
+	isolated := t.TempDir()
+	t.Setenv("HOME", isolated)
+	t.Setenv("XDG_CONFIG_HOME", filepath.Join(isolated, ".config"))
+	t.Setenv("XDG_DATA_HOME", filepath.Join(isolated, ".local", "share"))
+
+	workDir := t.TempDir()
+	dataDir := t.TempDir()
+	configPath := filepath.Join(workDir, "crush.json")
+	cfgJSON := `{
+        "hooks": {
+            "PreToolUse": [
+                {"matcher": "^bash$", "command": "exit 0"}
+            ]
+        }
+    }`
+	require.NoError(t, os.WriteFile(configPath, []byte(cfgJSON), 0o600))
+
+	store, err := config.Load(workDir, dataDir, false)
+	require.NoError(t, err)
+	assertHookFilters(t, store)
+
+	require.NoError(t, store.SetConfigField(config.ScopeGlobal, "options.debug", true))
+
+	assertHookFilters(t, store)
+}
diff --git a/internal/config/store.go b/internal/config/store.go
index 86fa937d1595b83f97fa43d3abd0a39cabd5f8cc..7c3d0f80cdebf545d2601ea78f490eddef3067e7 100644
--- a/internal/config/store.go
+++ b/internal/config/store.go
@@ -590,6 +590,12 @@ func (s *ConfigStore) ReloadFromDisk(ctx context.Context) error {
 		}
 	}
 
+	// Validate hooks after all config merging is complete so matcher
+	// regexes are recompiled on the reloaded config (mirrors Load).
+	if err := cfg.ValidateHooks(); err != nil {
+		return fmt.Errorf("invalid hook configuration on reload: %w", err)
+	}
+
 	// Preserve runtime overrides
 	overrides := s.overrides