diff --git a/news/2 Fixes/10023.md b/news/2 Fixes/10023.md
new file mode 100644
index 000000000000..d335b8eaf47b
--- /dev/null
+++ b/news/2 Fixes/10023.md	
@@ -0,0 +1 @@
+Jupyter autocompletion will only show magic commands on empty lines, preventing them of appearing in functions.
diff --git a/src/client/datascience/interactive-common/intellisense/intellisenseProvider.ts b/src/client/datascience/interactive-common/intellisense/intellisenseProvider.ts
index 9a4821ca2057..b9882cfa32d7 100644
--- a/src/client/datascience/interactive-common/intellisense/intellisenseProvider.ts
+++ b/src/client/datascience/interactive-common/intellisense/intellisenseProvider.ts
@@ -36,7 +36,8 @@ import {
     IInteractiveWindowListener,
     IInteractiveWindowProvider,
     IJupyterExecution,
-    INotebook
+    INotebook,
+    INotebookCompletion
 } from '../../types';
 import {
     ICancelIntellisenseRequest,
@@ -377,6 +378,7 @@ export class IntellisenseProvider implements IInteractiveWindowListener {
                 request.cellId,
                 cancelSource.token
             );
+
             const jupyterCompletions = this.provideJupyterCompletionItems(
                 request.position,
                 request.context,
@@ -469,6 +471,8 @@ export class IntellisenseProvider implements IInteractiveWindowListener {
 
                     const jupyterResults = await activeNotebook.getCompletion(data.text, offsetInCode, cancelToken);
                     if (jupyterResults && jupyterResults.matches) {
+                        const filteredMatches = this.filterJupyterMatches(document, jupyterResults, cellId, position);
+
                         const baseOffset = data.offset;
                         const basePosition = document.positionAt(baseOffset);
                         const startPosition = document.positionAt(jupyterResults.cursor.start + baseOffset);
@@ -480,11 +484,7 @@ export class IntellisenseProvider implements IInteractiveWindowListener {
                             endColumn: endPosition.character + 1
                         };
                         return {
-                            suggestions: convertStringsToSuggestions(
-                                jupyterResults.matches,
-                                range,
-                                jupyterResults.metadata
-                            ),
+                            suggestions: convertStringsToSuggestions(filteredMatches, range, jupyterResults.metadata),
                             incomplete: false
                         };
                     }
@@ -502,6 +502,23 @@ export class IntellisenseProvider implements IInteractiveWindowListener {
         };
     }
 
+    // The suggestions that the kernel is giving always include magic commands. That is confusing to the user.
+    // This function is called by provideJupyterCompletionItems to filter those magic commands when not in an empty line of code.
+    private filterJupyterMatches(
+        document: IntellisenseDocument,
+        jupyterResults: INotebookCompletion,
+        cellId: string,
+        position: monacoEditor.Position
+    ) {
+        // If the line we're analyzing is empty or a whitespace, we filter out the magic commands
+        // as its confusing to see them appear after a . or inside ().
+        const pos = document.convertToDocumentPosition(cellId, position.lineNumber, position.column);
+        const line = document.lineAt(pos);
+        return line.isEmptyOrWhitespace
+            ? jupyterResults.matches
+            : jupyterResults.matches.filter(match => !match.startsWith('%'));
+    }
+
     private postTimedResponse<R, M extends IInteractiveWindowMapping, T extends keyof M>(
         promises: Promise<R>[],
         message: T,
diff --git a/src/test/datascience/intellisense.functional.test.tsx b/src/test/datascience/intellisense.functional.test.tsx
index bf4a8843ff4f..c8b781b263bb 100644
--- a/src/test/datascience/intellisense.functional.test.tsx
+++ b/src/test/datascience/intellisense.functional.test.tsx
@@ -12,7 +12,7 @@ import { MonacoEditor } from '../../datascience-ui/react-common/monacoEditor';
 import { noop } from '../core';
 import { DataScienceIocContainer } from './dataScienceIocContainer';
 import { getOrCreateInteractiveWindow, runMountedTest } from './interactiveWindowTestHelpers';
-import { getInteractiveEditor, typeCode } from './testHelpers';
+import { enterEditorKey, getInteractiveEditor, typeCode } from './testHelpers';
 
 // tslint:disable:max-func-body-length trailing-comma no-any no-multiline-string
 suite('DataScience Intellisense tests', () => {
@@ -69,6 +69,14 @@ suite('DataScience Intellisense tests', () => {
         assert.ok(innerTexts.includes(expectedSpan), 'Intellisense row not matching');
     }
 
+    function verifyIntellisenseNotVisible(
+        wrapper: ReactWrapper<any, Readonly<{}>, React.Component>,
+        expectedSpan: string
+    ) {
+        const innerTexts = getIntellisenseTextLines(wrapper);
+        assert.ok(!innerTexts.includes(expectedSpan), 'Intellisense row is showing');
+    }
+
     function waitForSuggestion(
         wrapper: ReactWrapper<any, Readonly<{}>, React.Component>
     ): { disposable: IDisposable; promise: Promise<void> } {
@@ -230,4 +238,60 @@ suite('DataScience Intellisense tests', () => {
             return ioc;
         }
     );
+
+    runMountedTest(
+        'Filtered Jupyter autocomplete, verify magic commands appear',
+        async wrapper => {
+            if (ioc.mockJupyter) {
+                // This test only works when mocking.
+
+                // Create an interactive window so that it listens to the results.
+                const interactiveWindow = await getOrCreateInteractiveWindow(ioc);
+                await interactiveWindow.show();
+
+                // Then enter some code. Don't submit, we're just testing that autocomplete appears
+                const suggestion = waitForSuggestion(wrapper);
+                typeCode(getInteractiveEditor(wrapper), 'print');
+                enterEditorKey(wrapper, { code: ' ', ctrlKey: true });
+                await suggestion.promise;
+                suggestion.disposable.dispose();
+                verifyIntellisenseNotVisible(wrapper, '%%bash');
+
+                // Force suggestion box to disappear so that shutdown doesn't try to generate suggestions
+                // while we're destroying the editor.
+                clearEditor(wrapper);
+            }
+        },
+        () => {
+            return ioc;
+        }
+    );
+
+    runMountedTest(
+        'Filtered Jupyter autocomplete, verify magic commands are filtered',
+        async wrapper => {
+            if (ioc.mockJupyter) {
+                // This test only works when mocking.
+
+                // Create an interactive window so that it listens to the results.
+                const interactiveWindow = await getOrCreateInteractiveWindow(ioc);
+                await interactiveWindow.show();
+
+                // Then enter some code. Don't submit, we're just testing that autocomplete appears
+                const suggestion = waitForSuggestion(wrapper);
+                typeCode(getInteractiveEditor(wrapper), ' ');
+                enterEditorKey(wrapper, { code: ' ', ctrlKey: true });
+                await suggestion.promise;
+                suggestion.disposable.dispose();
+                verifyIntellisenseVisible(wrapper, '%%bash');
+
+                // Force suggestion box to disappear so that shutdown doesn't try to generate suggestions
+                // while we're destroying the editor.
+                clearEditor(wrapper);
+            }
+        },
+        () => {
+            return ioc;
+        }
+    );
 });
diff --git a/src/test/datascience/mockJupyterSession.ts b/src/test/datascience/mockJupyterSession.ts
index 1b6485006d44..16c0caf30608 100644
--- a/src/test/datascience/mockJupyterSession.ts
+++ b/src/test/datascience/mockJupyterSession.ts
@@ -142,7 +142,7 @@ export class MockJupyterSession implements IJupyterSession {
 
         return {
             content: {
-                matches: ['printly'], // This keeps this in the intellisense when the editor pairs down results
+                matches: ['printly', '%%bash'], // This keeps this in the intellisense when the editor pairs down results
                 cursor_start: 0,
                 cursor_end: 7,
                 status: 'ok',