diff --git a/packages/run/README.md b/packages/run/README.md
index a57b375db..4eb5bb8d1 100644
--- a/packages/run/README.md
+++ b/packages/run/README.md
@@ -83,6 +83,13 @@ Default: `false`
 
 If `true`, instructs the plugin to listen to `stdin` for the sequences listed below followed by enter (carriage return).
 
+### `input`
+
+Type: `String`<br>
+Default: `null`
+
+Specifies the entry point this plugin will use. Not necessary if you only have a single entry point.
+
 #### `stdin` Input Actions
 
 When this option is enabled, `stdin` will listen for the following input and perform the associated action:
diff --git a/packages/run/src/index.ts b/packages/run/src/index.ts
index a4f5e575e..63c7dbe7a 100644
--- a/packages/run/src/index.ts
+++ b/packages/run/src/index.ts
@@ -12,6 +12,7 @@ export default function run(opts: RollupRunOptions = {}): Plugin {
 
   const args = opts.args || [];
   const allowRestarts = opts.allowRestarts || false;
+  const overrideInput = opts.input;
   const forkOptions = opts.options || opts;
   delete (forkOptions as RollupRunOptions).args;
   delete (forkOptions as RollupRunOptions).allowRestarts;
@@ -20,7 +21,7 @@ export default function run(opts: RollupRunOptions = {}): Plugin {
     name: 'run',
 
     buildStart(options) {
-      let inputs = options.input;
+      let inputs = overrideInput ?? options.input;
 
       if (typeof inputs === 'string') {
         inputs = [inputs];
@@ -31,7 +32,9 @@ export default function run(opts: RollupRunOptions = {}): Plugin {
       }
 
       if (inputs.length > 1) {
-        throw new Error(`@rollup/plugin-run only works with a single entry point`);
+        throw new Error(
+          `@rollup/plugin-run must have a single entry point; consider setting the \`input\` option`
+        );
       }
 
       input = resolve(inputs[0]);
diff --git a/packages/run/test/test.js b/packages/run/test/test.js
index 98c1a4d40..587850433 100644
--- a/packages/run/test/test.js
+++ b/packages/run/test/test.js
@@ -98,6 +98,23 @@ test('throws an error when bundle is not written to disk', async (t) => {
   );
 });
 
+test('throws an error when input option is invalid', async (t) => {
+  const testInput = join(cwd, 'change-detect-input.js');
+  const bundle = await rollup({
+    input: [input, testInput],
+    plugins: [run({ input: 'something that is not an input' })]
+  });
+  await t.throwsAsync(
+    async () => {
+      await bundle.write(outputDirOptions);
+    },
+    {
+      instanceOf: Error,
+      message: '@rollup/plugin-run could not find output chunk'
+    }
+  );
+});
+
 test('throws an error when there are multiple entry points', async (t) => {
   const testInput = join(cwd, 'change-detect-input.js');
   await t.throwsAsync(
@@ -109,7 +126,8 @@ test('throws an error when there are multiple entry points', async (t) => {
     },
     {
       instanceOf: Error,
-      message: '@rollup/plugin-run only works with a single entry point'
+      message:
+        '@rollup/plugin-run must have a single entry point; consider setting the `input` option'
     }
   );
 });
@@ -137,6 +155,16 @@ test('allow the allowRestart option', async (t) => {
   t.true(mockChildProcess.calledWithExactly(outputOptions.file, [], {}));
 });
 
+test('allow the input option', async (t) => {
+  const testInput = join(cwd, 'change-detect-input.js');
+  const bundle = await rollup({
+    input: [input, testInput],
+    plugins: [run({ input })]
+  });
+  await bundle.write(outputDirOptions);
+  t.true(mockChildProcess.calledWithExactly(join(outputDir, 'input.js'), [], { input }));
+});
+
 test.after(async () => {
   await del(['output']);
 });
diff --git a/packages/run/types/index.d.ts b/packages/run/types/index.d.ts
index d546be160..fe9fbe599 100644
--- a/packages/run/types/index.d.ts
+++ b/packages/run/types/index.d.ts
@@ -6,6 +6,7 @@ export interface RollupRunOptions extends ForkOptions {
   args?: readonly string[];
   options?: ForkOptions;
   allowRestarts?: boolean;
+  input?: string;
 }
 
 /**