diff --git a/package.json b/package.json
index acd4770..fb3c9ce 100644
--- a/package.json
+++ b/package.json
@@ -63,37 +63,39 @@
       "properties": {
         "ruff.args": {
           "default": [],
-          "markdownDescription": "Additional command-line arguments to pass to `ruff`, e.g., `\"args\": [\"--config=/path/to/pyproject.toml\"]`. Supports a subset of Ruff's command-line arguments, ignoring those that are required to operate the LSP, like `--force-exclude` and `--verbose`.",
+          "markdownDescription": "Additional command-line arguments to pass to `ruff check`, e.g., `\"args\": [\"--config=/path/to/pyproject.toml\"]`. Supports a subset of Ruff's command-line arguments, ignoring those that are required to operate the LSP, like `--force-exclude` and `--verbose`.",
+          "markdownDeprecationMessage": "**Deprecated**: Please use `#ruff.lint.args` instead.",
           "items": {
             "type": "string"
           },
           "scope": "resource",
           "type": "array"
         },
-        "ruff.path": {
+        "ruff.lint.args": {
           "default": [],
-          "markdownDescription": "Path to a custom `ruff` executable, e.g., `[\"/path/to/ruff\"]`.",
-          "scope": "resource",
+          "markdownDescription": "Additional command-line arguments to pass to `ruff check`, e.g., `\"args\": [\"--config=/path/to/pyproject.toml\"]`. Supports a subset of Ruff's command-line arguments, ignoring those that are required to operate the LSP, like `--force-exclude` and `--verbose`.",
           "items": {
             "type": "string"
           },
+          "scope": "resource",
           "type": "array"
         },
-        "ruff.importStrategy": {
-          "default": "fromEnvironment",
-          "markdownDescription": "Strategy for loading the `ruff` executable. `fromEnvironment` picks up Ruff from the environment, falling back to the bundled version if needed. `useBundled` uses the version bundled with the extension.",
+        "ruff.run": {
+          "default": "onType",
+          "markdownDescription": "Run Ruff on every keystroke (`onType`) or on save (`onSave`).",
+          "markdownDeprecationMessage": "**Deprecated**: Please use `#ruff.lint.run` instead.",
           "enum": [
-            "fromEnvironment",
-            "useBundled"
+            "onType",
+            "onSave"
           ],
           "enumDescriptions": [
-            "Use `ruff` from environment, falling back to the bundled version if `ruff` is not found.",
-            "Always use the bundled version of `ruff`."
+            "Run Ruff on every keystroke.",
+            "Run Ruff on save."
           ],
           "scope": "window",
           "type": "string"
         },
-        "ruff.run": {
+        "ruff.lint.run": {
           "default": "onType",
           "markdownDescription": "Run Ruff on every keystroke (`onType`) or on save (`onSave`).",
           "enum": [
@@ -107,9 +109,32 @@
           "scope": "window",
           "type": "string"
         },
+        "ruff.path": {
+          "default": [],
+          "markdownDescription": "Path to a custom `ruff` executable, e.g., `[\"/path/to/ruff\"]`.",
+          "scope": "resource",
+          "items": {
+            "type": "string"
+          },
+          "type": "array"
+        },
+        "ruff.importStrategy": {
+          "default": "fromEnvironment",
+          "markdownDescription": "Strategy for loading the `ruff` executable. `fromEnvironment` picks up Ruff from the environment, falling back to the bundled version if needed. `useBundled` uses the version bundled with the extension.",
+          "enum": [
+            "fromEnvironment",
+            "useBundled"
+          ],
+          "enumDescriptions": [
+            "Use `ruff` from environment, falling back to the bundled version if `ruff` is not found.",
+            "Always use the bundled version of `ruff`."
+          ],
+          "scope": "window",
+          "type": "string"
+        },
         "ruff.interpreter": {
           "default": [],
-          "markdownDescription": "Path to a Python interpreter to use to run the linter server.",
+          "markdownDescription": "Path to a Python interpreter to use to run the LSP server.",
           "scope": "window",
           "items": {
             "type": "string"
diff --git a/src/common/settings.ts b/src/common/settings.ts
index 8be5c52..d2bf1e1 100644
--- a/src/common/settings.ts
+++ b/src/common/settings.ts
@@ -21,20 +21,28 @@ type CodeAction = {
   };
 };
 
+type Lint = {
+  args?: string[];
+  run?: Run;
+};
+
 export interface ISettings {
   cwd: string;
   workspace: string;
-  args: string[];
   path: string[];
   interpreter: string[];
   importStrategy: ImportStrategy;
-  run: Run;
   codeAction: CodeAction;
   enable: boolean;
   enableExperimentalFormatter: boolean;
   showNotifications: string;
   organizeImports: boolean;
   fixAll: boolean;
+  lint: Lint;
+
+  // Deprecated settings (prefer `lint.args`, etc.).
+  args: string[];
+  run: Run;
 }
 
 export function getExtensionSettings(namespace: string): Promise<ISettings[]> {
@@ -86,17 +94,20 @@ export async function getWorkspaceSettings(
   return {
     cwd: workspace.uri.fsPath,
     workspace: workspace.uri.toString(),
-    args: resolveVariables(config.get<string[]>("args") ?? [], workspace),
     path: resolveVariables(config.get<string[]>("path") ?? [], workspace),
     interpreter: resolveVariables(interpreter, workspace),
     importStrategy: config.get<ImportStrategy>("importStrategy") ?? "fromEnvironment",
-    run: config.get<Run>("run") ?? "onType",
     codeAction: config.get<CodeAction>("codeAction") ?? {},
+    lint: config.get<Lint>("lint") ?? {},
     enable: config.get<boolean>("enable") ?? true,
     organizeImports: config.get<boolean>("organizeImports") ?? true,
     fixAll: config.get<boolean>("fixAll") ?? true,
     showNotifications: config.get<string>("showNotifications") ?? "off",
     enableExperimentalFormatter: config.get<boolean>("enableExperimentalFormatter") ?? false,
+
+    // Deprecated settings (prefer `lint.args`, etc.).
+    args: resolveVariables(config.get<string[]>("args") ?? [], workspace),
+    run: config.get<Run>("run") ?? "onType",
   };
 }
 
@@ -110,12 +121,11 @@ export async function getGlobalSettings(namespace: string): Promise<ISettings> {
   return {
     cwd: process.cwd(),
     workspace: process.cwd(),
-    args: getGlobalValue<string[]>(config, "args", []),
     path: getGlobalValue<string[]>(config, "path", []),
     interpreter: [],
     importStrategy: getGlobalValue<ImportStrategy>(config, "importStrategy", "fromEnvironment"),
-    run: getGlobalValue<Run>(config, "run", "onType"),
     codeAction: getGlobalValue<CodeAction>(config, "codeAction", {}),
+    lint: getGlobalValue<Lint>(config, "lint", {}),
     enable: getGlobalValue<boolean>(config, "enable", true),
     organizeImports: getGlobalValue<boolean>(config, "organizeImports", true),
     fixAll: getGlobalValue<boolean>(config, "fixAll", true),
@@ -125,6 +135,10 @@ export async function getGlobalSettings(namespace: string): Promise<ISettings> {
       "enableExperimentalFormatter",
       false,
     ),
+
+    // Deprecated settings (prefer `lint.args`, etc.).
+    args: getGlobalValue<string[]>(config, "args", []),
+    run: getGlobalValue<Run>(config, "run", "onType"),
   };
 }
 
@@ -133,17 +147,20 @@ export function checkIfConfigurationChanged(
   namespace: string,
 ): boolean {
   const settings = [
-    `${namespace}.args`,
     `${namespace}.codeAction`,
+    `${namespace}.enableExperimentalFormatter`,
     `${namespace}.enable`,
     `${namespace}.fixAll`,
     `${namespace}.importStrategy`,
     `${namespace}.interpreter`,
+    `${namespace}.lint`,
     `${namespace}.organizeImports`,
     `${namespace}.path`,
-    `${namespace}.run`,
     `${namespace}.showNotifications`,
-    `${namespace}.enableExperimentalFormatter`,
+
+    // Deprecated settings (prefer `lint.args`, etc.).
+    `${namespace}.args`,
+    `${namespace}.run`,
   ];
   return settings.some((s) => e.affectsConfiguration(s));
 }