diff --git a/CHANGELOG/CHANGELOG-1.17.md b/CHANGELOG/CHANGELOG-1.17.md
index 6e654e705..684bc8f83 100644
--- a/CHANGELOG/CHANGELOG-1.17.md
+++ b/CHANGELOG/CHANGELOG-1.17.md
@@ -18,4 +18,5 @@ When cutting a new release, update the `unreleased` heading to the tag being gen
 * [CHANGE] [1313](https://github.com/k8ssandra/k8ssandra-operator/issues/1313) upgrade controller-runtime to 1.17 series, Go to 1.21.
 * [BUGFIX] [1317](https://github.com/k8ssandra/k8ssandra-operator/issues/1317) Fix issues with caches in cluster scoped deployments where they were continuing to use a multi-namespace scoped cache and not an informer cache.
 * [BUGFIX] [1316](https://github.com/k8ssandra/k8ssandra-operator/issues/1316) Fix interchanged intervals and timeouts in tests.
+* [BUGFIX] [1322](https://github.com/k8ssandra/k8ssandra-operator/issues/1322) Fix bug where server-system-logger customisations from the Containers field would be overwritten when vector was enabled. 
 * [FEATURE] Add support for HCD 1.0
diff --git a/controllers/k8ssandra/k8ssandracluster_controller_test.go b/controllers/k8ssandra/k8ssandracluster_controller_test.go
index fdf92e5ca..6a30e9b77 100644
--- a/controllers/k8ssandra/k8ssandracluster_controller_test.go
+++ b/controllers/k8ssandra/k8ssandracluster_controller_test.go
@@ -2415,6 +2415,11 @@ func injectContainersAndVolumes(t *testing.T, ctx context.Context, f *framework.
 			Cassandra: &api.CassandraClusterTemplate{
 				DatacenterOptions: api.DatacenterOptions{
 					ServerVersion: serverVersion,
+					Telemetry: &telemetryapi.TelemetrySpec{
+						Vector: &telemetryapi.VectorSpec{
+							Enabled: ptr.To(true),
+						},
+					},
 					StorageConfig: &cassdcapi.StorageConfig{
 						CassandraDataVolumeClaimSpec: &corev1.PersistentVolumeClaimSpec{
 							StorageClassName: &defaultStorageClass,
@@ -2431,6 +2436,14 @@ func injectContainersAndVolumes(t *testing.T, ctx context.Context, f *framework.
 								},
 							},
 						},
+						{
+							Name:  "server-system-logger",
+							Image: "test-vector",
+							SecurityContext: &corev1.SecurityContext{
+								RunAsUser:              ptr.To[int64](9999),
+								ReadOnlyRootFilesystem: ptr.To(true),
+							},
+						},
 					},
 					ExtraVolumes: &api.K8ssandraVolumes{
 						PVCs: []cassdcapi.AdditionalVolumes{
@@ -2505,7 +2518,19 @@ func injectContainersAndVolumes(t *testing.T, ctx context.Context, f *framework.
 	_, foundMain := cassandra.FindContainer(dc.Spec.PodTemplateSpec, "injected-container")
 	require.True(foundMain, "failed to find injected-container")
 
-	require.Equal(2, len(dc.Spec.StorageConfig.AdditionalVolumes), "expected 2 additionals volumes")
+	vectorContainerIdx, foundVector := cassandra.FindContainer(dc.Spec.PodTemplateSpec, "server-system-logger")
+	require.True(foundVector, "failed to find injected-container")
+	require.Equal(ptr.To[int64](9999),
+		dc.Spec.PodTemplateSpec.Spec.Containers[vectorContainerIdx].SecurityContext.RunAsUser,
+		"server-system-logger RunAsUser is not set")
+	require.Equal(ptr.To(true),
+		dc.Spec.PodTemplateSpec.Spec.Containers[vectorContainerIdx].SecurityContext.ReadOnlyRootFilesystem,
+		"server-system-logger RunAsUser is not set")
+	require.Equal(ptr.To(true),
+		dc.Spec.PodTemplateSpec.Spec.Containers[vectorContainerIdx].SecurityContext.ReadOnlyRootFilesystem,
+		"server-system-logger RunAsUser is not set")
+
+	require.Equal(3, len(dc.Spec.StorageConfig.AdditionalVolumes), "expected 3 additionals volumes")
 	require.Equal("/etc/injected", dc.Spec.StorageConfig.AdditionalVolumes[0].MountPath, "expected injected-volume mount path")
 
 	t.Log("deleting K8ssandraCluster")
diff --git a/pkg/telemetry/vector.go b/pkg/telemetry/vector.go
index 820d7c07b..42e536ae6 100644
--- a/pkg/telemetry/vector.go
+++ b/pkg/telemetry/vector.go
@@ -2,10 +2,11 @@ package telemetry
 
 import (
 	"fmt"
+	"strings"
+
 	"github.com/k8ssandra/k8ssandra-operator/pkg/labels"
 	"github.com/k8ssandra/k8ssandra-operator/pkg/utils"
 	"sigs.k8s.io/controller-runtime/pkg/client"
-	"strings"
 
 	"github.com/go-logr/logr"
 	cassdcapi "github.com/k8ssandra/cass-operator/apis/cassandra/v1beta1"
@@ -22,8 +23,14 @@ import (
 func InjectCassandraVectorAgentConfig(telemetrySpec *telemetry.TelemetrySpec, dcConfig *cassandra.DatacenterConfig, k8cName string, logger logr.Logger) error {
 	if telemetrySpec.IsVectorEnabled() {
 		logger.V(1).Info("Updating server-system-logger agent in Cassandra pods")
-		loggerContainer := corev1.Container{
-			Name: reconciliation.SystemLoggerContainerName,
+		originalContainerIdx, found := cassandra.FindContainer(&dcConfig.PodTemplateSpec, reconciliation.SystemLoggerContainerName)
+		var loggerContainer corev1.Container
+		if found {
+			loggerContainer = dcConfig.PodTemplateSpec.Spec.Containers[originalContainerIdx]
+		} else {
+			loggerContainer = corev1.Container{
+				Name: reconciliation.SystemLoggerContainerName,
+			}
 		}
 
 		loggerResources := vector.VectorContainerResources(telemetrySpec)