diff --git a/bundle/trampoline/python_dbr_warning.go b/bundle/trampoline/python_dbr_warning.go
index f62e9eab4..cf3e9aeb3 100644
--- a/bundle/trampoline/python_dbr_warning.go
+++ b/bundle/trampoline/python_dbr_warning.go
@@ -6,6 +6,7 @@ import (
 	"strings"
 
 	"github.com/databricks/cli/bundle"
+	"github.com/databricks/cli/bundle/config"
 	"github.com/databricks/cli/bundle/libraries"
 	"github.com/databricks/cli/libs/diag"
 	"github.com/databricks/cli/libs/log"
@@ -22,6 +23,9 @@ func WrapperWarning() bundle.Mutator {
 
 func (m *wrapperWarning) Apply(ctx context.Context, b *bundle.Bundle) diag.Diagnostics {
 	if isPythonWheelWrapperOn(b) {
+		if config.IsExplicitlyEnabled(b.Config.Presets.SourceLinkedDeployment) {
+			return diag.Warningf("Python wheel notebook wrapper is not available when using source-linked deployment mode. You can disable this mode by setting 'presets.source_linked_deployment: false'")
+		}
 		return nil
 	}
 
diff --git a/bundle/trampoline/python_dbr_warning_test.go b/bundle/trampoline/python_dbr_warning_test.go
index d293c9477..aef1b37ba 100644
--- a/bundle/trampoline/python_dbr_warning_test.go
+++ b/bundle/trampoline/python_dbr_warning_test.go
@@ -335,6 +335,24 @@ func TestNoWarningWhenPythonWheelWrapperIsOn(t *testing.T) {
 	require.NoError(t, diags.Error())
 }
 
+func TestPythonWheelWithSourceLinkedDeployment(t *testing.T) {
+	enabled := true
+	b := &bundle.Bundle{
+		Config: config.Root{
+			Experimental: &config.Experimental{
+				PythonWheelWrapper: true,
+			},
+			Presets: config.Presets{
+				SourceLinkedDeployment: &enabled,
+			},
+		},
+	}
+
+	diags := bundle.Apply(context.Background(), b, WrapperWarning())
+	require.NoError(t, diags.Error())
+	require.Contains(t, diags[0].Summary, "Python wheel notebook wrapper is not available when using source-linked deployment mode")
+}
+
 func TestSparkVersionLowerThanExpected(t *testing.T) {
 	testCases := map[string]bool{
 		"13.1.x-scala2.12":                false,