diff --git a/internal/operator-controller/applier/phase.go b/internal/operator-controller/applier/phase.go
index 9ae31db6a7..6baa396cfc 100644
--- a/internal/operator-controller/applier/phase.go
+++ b/internal/operator-controller/applier/phase.go
@@ -1,6 +1,9 @@
 package applier
 
 import (
+	"cmp"
+	"slices"
+
 	"k8s.io/apimachinery/pkg/runtime/schema"
 
 	ocv1 "github.com/operator-framework/operator-controller/api/v1"
@@ -111,6 +114,23 @@ func init() {
 	}
 }
 
+// Sort objects within the phase deterministically by Group, Version, Kind, Namespace, Name
+// to ensure consistent ordering regardless of input order. This is critical for
+// Helm-to-Boxcutter migration where the same resources may come from different sources
+// (Helm release manifest vs bundle manifest) and need to produce identical phases.
+func compareClusterExtensionRevisionObjects(a, b ocv1.ClusterExtensionRevisionObject) int {
+	aGVK := a.Object.GroupVersionKind()
+	bGVK := b.Object.GroupVersionKind()
+
+	return cmp.Or(
+		cmp.Compare(aGVK.Group, bGVK.Group),
+		cmp.Compare(aGVK.Version, bGVK.Version),
+		cmp.Compare(aGVK.Kind, bGVK.Kind),
+		cmp.Compare(a.Object.GetNamespace(), b.Object.GetNamespace()),
+		cmp.Compare(a.Object.GetName(), b.Object.GetName()),
+	)
+}
+
 // PhaseSort takes an unsorted list of objects and organizes them into sorted phases.
 // Each phase will be applied in order according to DefaultPhaseOrder. Objects
 // within a single phase are applied simultaneously.
@@ -125,6 +145,9 @@ func PhaseSort(unsortedObjs []ocv1.ClusterExtensionRevisionObject) []ocv1.Cluste
 
 	for _, phaseName := range defaultPhaseOrder {
 		if objs, ok := phaseMap[phaseName]; ok {
+			// Sort objects within the phase deterministically
+			slices.SortFunc(objs, compareClusterExtensionRevisionObjects)
+
 			phasesSorted = append(phasesSorted, ocv1.ClusterExtensionRevisionPhase{
 				Name:    string(phaseName),
 				Objects: objs,
diff --git a/internal/operator-controller/applier/phase_test.go b/internal/operator-controller/applier/phase_test.go
index 3f2d85d0b1..6c0fe8fb32 100644
--- a/internal/operator-controller/applier/phase_test.go
+++ b/internal/operator-controller/applier/phase_test.go
@@ -259,6 +259,14 @@ func Test_PhaseSort(t *testing.T) {
 				{
 					Name: string(applier.PhaseDeploy),
 					Objects: []v1.ClusterExtensionRevisionObject{
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "v1",
+									"kind":       "ConfigMap",
+								},
+							},
+						},
 						{
 							Object: unstructured.Unstructured{
 								Object: map[string]interface{}{
@@ -267,11 +275,64 @@ func Test_PhaseSort(t *testing.T) {
 								},
 							},
 						},
+					},
+				},
+			},
+		},
+		{
+			name: "no objects",
+			objs: []v1.ClusterExtensionRevisionObject{},
+			want: []v1.ClusterExtensionRevisionPhase{},
+		},
+		{
+			name: "sort by group within same phase",
+			objs: []v1.ClusterExtensionRevisionObject{
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "apps/v1",
+							"kind":       "Deployment",
+							"metadata": map[string]interface{}{
+								"name": "test",
+							},
+						},
+					},
+				},
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "v1",
+							"kind":       "ConfigMap",
+							"metadata": map[string]interface{}{
+								"name": "test",
+							},
+						},
+					},
+				},
+			},
+			want: []v1.ClusterExtensionRevisionPhase{
+				{
+					Name: string(applier.PhaseDeploy),
+					Objects: []v1.ClusterExtensionRevisionObject{
 						{
 							Object: unstructured.Unstructured{
 								Object: map[string]interface{}{
 									"apiVersion": "v1",
 									"kind":       "ConfigMap",
+									"metadata": map[string]interface{}{
+										"name": "test",
+									},
+								},
+							},
+						},
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "apps/v1",
+									"kind":       "Deployment",
+									"metadata": map[string]interface{}{
+										"name": "test",
+									},
 								},
 							},
 						},
@@ -280,9 +341,542 @@ func Test_PhaseSort(t *testing.T) {
 			},
 		},
 		{
-			name: "no objects",
-			objs: []v1.ClusterExtensionRevisionObject{},
-			want: []v1.ClusterExtensionRevisionPhase{},
+			name: "sort by version within same group and phase",
+			objs: []v1.ClusterExtensionRevisionObject{
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "batch/v1",
+							"kind":       "Job",
+							"metadata": map[string]interface{}{
+								"name": "test",
+							},
+						},
+					},
+				},
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "batch/v1beta1",
+							"kind":       "CronJob",
+							"metadata": map[string]interface{}{
+								"name": "test",
+							},
+						},
+					},
+				},
+			},
+			want: []v1.ClusterExtensionRevisionPhase{
+				{
+					Name: string(applier.PhaseDeploy),
+					Objects: []v1.ClusterExtensionRevisionObject{
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "batch/v1",
+									"kind":       "Job",
+									"metadata": map[string]interface{}{
+										"name": "test",
+									},
+								},
+							},
+						},
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "batch/v1beta1",
+									"kind":       "CronJob",
+									"metadata": map[string]interface{}{
+										"name": "test",
+									},
+								},
+							},
+						},
+					},
+				},
+			},
+		},
+		{
+			name: "sort by kind within same group, version, and phase",
+			objs: []v1.ClusterExtensionRevisionObject{
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "v1",
+							"kind":       "Service",
+							"metadata": map[string]interface{}{
+								"name": "test",
+							},
+						},
+					},
+				},
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "v1",
+							"kind":       "ConfigMap",
+							"metadata": map[string]interface{}{
+								"name": "test",
+							},
+						},
+					},
+				},
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "v1",
+							"kind":       "Secret",
+							"metadata": map[string]interface{}{
+								"name": "test",
+							},
+						},
+					},
+				},
+			},
+			want: []v1.ClusterExtensionRevisionPhase{
+				{
+					Name: string(applier.PhaseDeploy),
+					Objects: []v1.ClusterExtensionRevisionObject{
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "v1",
+									"kind":       "ConfigMap",
+									"metadata": map[string]interface{}{
+										"name": "test",
+									},
+								},
+							},
+						},
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "v1",
+									"kind":       "Secret",
+									"metadata": map[string]interface{}{
+										"name": "test",
+									},
+								},
+							},
+						},
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "v1",
+									"kind":       "Service",
+									"metadata": map[string]interface{}{
+										"name": "test",
+									},
+								},
+							},
+						},
+					},
+				},
+			},
+		},
+		{
+			name: "sort by namespace within same GVK and phase",
+			objs: []v1.ClusterExtensionRevisionObject{
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "v1",
+							"kind":       "ConfigMap",
+							"metadata": map[string]interface{}{
+								"name":      "test",
+								"namespace": "zebra",
+							},
+						},
+					},
+				},
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "v1",
+							"kind":       "ConfigMap",
+							"metadata": map[string]interface{}{
+								"name":      "test",
+								"namespace": "alpha",
+							},
+						},
+					},
+				},
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "v1",
+							"kind":       "ConfigMap",
+							"metadata": map[string]interface{}{
+								"name":      "test",
+								"namespace": "beta",
+							},
+						},
+					},
+				},
+			},
+			want: []v1.ClusterExtensionRevisionPhase{
+				{
+					Name: string(applier.PhaseDeploy),
+					Objects: []v1.ClusterExtensionRevisionObject{
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "v1",
+									"kind":       "ConfigMap",
+									"metadata": map[string]interface{}{
+										"name":      "test",
+										"namespace": "alpha",
+									},
+								},
+							},
+						},
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "v1",
+									"kind":       "ConfigMap",
+									"metadata": map[string]interface{}{
+										"name":      "test",
+										"namespace": "beta",
+									},
+								},
+							},
+						},
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "v1",
+									"kind":       "ConfigMap",
+									"metadata": map[string]interface{}{
+										"name":      "test",
+										"namespace": "zebra",
+									},
+								},
+							},
+						},
+					},
+				},
+			},
+		},
+		{
+			name: "sort by name within same GVK, namespace, and phase",
+			objs: []v1.ClusterExtensionRevisionObject{
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "v1",
+							"kind":       "ConfigMap",
+							"metadata": map[string]interface{}{
+								"name":      "zoo",
+								"namespace": "default",
+							},
+						},
+					},
+				},
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "v1",
+							"kind":       "ConfigMap",
+							"metadata": map[string]interface{}{
+								"name":      "apple",
+								"namespace": "default",
+							},
+						},
+					},
+				},
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "v1",
+							"kind":       "ConfigMap",
+							"metadata": map[string]interface{}{
+								"name":      "banana",
+								"namespace": "default",
+							},
+						},
+					},
+				},
+			},
+			want: []v1.ClusterExtensionRevisionPhase{
+				{
+					Name: string(applier.PhaseDeploy),
+					Objects: []v1.ClusterExtensionRevisionObject{
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "v1",
+									"kind":       "ConfigMap",
+									"metadata": map[string]interface{}{
+										"name":      "apple",
+										"namespace": "default",
+									},
+								},
+							},
+						},
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "v1",
+									"kind":       "ConfigMap",
+									"metadata": map[string]interface{}{
+										"name":      "banana",
+										"namespace": "default",
+									},
+								},
+							},
+						},
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "v1",
+									"kind":       "ConfigMap",
+									"metadata": map[string]interface{}{
+										"name":      "zoo",
+										"namespace": "default",
+									},
+								},
+							},
+						},
+					},
+				},
+			},
+		},
+		{
+			name: "comprehensive sorting - all dimensions",
+			objs: []v1.ClusterExtensionRevisionObject{
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "apps/v1",
+							"kind":       "Deployment",
+							"metadata": map[string]interface{}{
+								"name":      "app-z",
+								"namespace": "prod",
+							},
+						},
+					},
+				},
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "v1",
+							"kind":       "Secret",
+							"metadata": map[string]interface{}{
+								"name":      "secret-b",
+								"namespace": "prod",
+							},
+						},
+					},
+				},
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "v1",
+							"kind":       "Secret",
+							"metadata": map[string]interface{}{
+								"name":      "secret-a",
+								"namespace": "prod",
+							},
+						},
+					},
+				},
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "v1",
+							"kind":       "ConfigMap",
+							"metadata": map[string]interface{}{
+								"name":      "config",
+								"namespace": "dev",
+							},
+						},
+					},
+				},
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "apps/v1",
+							"kind":       "Deployment",
+							"metadata": map[string]interface{}{
+								"name":      "app-a",
+								"namespace": "prod",
+							},
+						},
+					},
+				},
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "v1",
+							"kind":       "ConfigMap",
+							"metadata": map[string]interface{}{
+								"name":      "config",
+								"namespace": "prod",
+							},
+						},
+					},
+				},
+			},
+			want: []v1.ClusterExtensionRevisionPhase{
+				{
+					Name: string(applier.PhaseDeploy),
+					Objects: []v1.ClusterExtensionRevisionObject{
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "v1",
+									"kind":       "ConfigMap",
+									"metadata": map[string]interface{}{
+										"name":      "config",
+										"namespace": "dev",
+									},
+								},
+							},
+						},
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "v1",
+									"kind":       "ConfigMap",
+									"metadata": map[string]interface{}{
+										"name":      "config",
+										"namespace": "prod",
+									},
+								},
+							},
+						},
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "v1",
+									"kind":       "Secret",
+									"metadata": map[string]interface{}{
+										"name":      "secret-a",
+										"namespace": "prod",
+									},
+								},
+							},
+						},
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "v1",
+									"kind":       "Secret",
+									"metadata": map[string]interface{}{
+										"name":      "secret-b",
+										"namespace": "prod",
+									},
+								},
+							},
+						},
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "apps/v1",
+									"kind":       "Deployment",
+									"metadata": map[string]interface{}{
+										"name":      "app-a",
+										"namespace": "prod",
+									},
+								},
+							},
+						},
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "apps/v1",
+									"kind":       "Deployment",
+									"metadata": map[string]interface{}{
+										"name":      "app-z",
+										"namespace": "prod",
+									},
+								},
+							},
+						},
+					},
+				},
+			},
+		},
+		{
+			name: "cluster-scoped vs namespaced resources - empty namespace sorts first",
+			objs: []v1.ClusterExtensionRevisionObject{
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "rbac.authorization.k8s.io/v1",
+							"kind":       "ClusterRole",
+							"metadata": map[string]interface{}{
+								"name": "admin",
+							},
+						},
+					},
+				},
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "rbac.authorization.k8s.io/v1",
+							"kind":       "ClusterRole",
+							"metadata": map[string]interface{}{
+								"name": "viewer",
+							},
+						},
+					},
+				},
+				{
+					Object: unstructured.Unstructured{
+						Object: map[string]interface{}{
+							"apiVersion": "rbac.authorization.k8s.io/v1",
+							"kind":       "Role",
+							"metadata": map[string]interface{}{
+								"name":      "admin",
+								"namespace": "default",
+							},
+						},
+					},
+				},
+			},
+			want: []v1.ClusterExtensionRevisionPhase{
+				{
+					Name: string(applier.PhaseRBAC),
+					Objects: []v1.ClusterExtensionRevisionObject{
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "rbac.authorization.k8s.io/v1",
+									"kind":       "ClusterRole",
+									"metadata": map[string]interface{}{
+										"name": "admin",
+									},
+								},
+							},
+						},
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "rbac.authorization.k8s.io/v1",
+									"kind":       "ClusterRole",
+									"metadata": map[string]interface{}{
+										"name": "viewer",
+									},
+								},
+							},
+						},
+						{
+							Object: unstructured.Unstructured{
+								Object: map[string]interface{}{
+									"apiVersion": "rbac.authorization.k8s.io/v1",
+									"kind":       "Role",
+									"metadata": map[string]interface{}{
+										"name":      "admin",
+										"namespace": "default",
+									},
+								},
+							},
+						},
+					},
+				},
+			},
 		},
 	} {
 		t.Run(tt.name, func(t *testing.T) {