diff --git a/CHANGELOG-developer.next.asciidoc b/CHANGELOG-developer.next.asciidoc
index f74e4a72782..9e6f49351bb 100644
--- a/CHANGELOG-developer.next.asciidoc
+++ b/CHANGELOG-developer.next.asciidoc
@@ -96,6 +96,7 @@ The list below covers the major changes between 7.0.0-rc2 and main only.
 - Cleaned up documentation errors & fixed a minor bug in Filebeat Azure blob storage input. {pull}36714[36714]
 - Fix copy arguments for strict aligned architectures. {pull}36976[36976]
 - Fix panic when more than 32767 pipeline clients are active. {issue}38197[38197] {pull}38556[38556]
+- Skip flakey metrics test on windows in filebeat httpjson input. {issue}39676[39676] {pull}39678[39678]
 
 ==== Added
 
diff --git a/x-pack/filebeat/input/httpjson/metrics_test.go b/x-pack/filebeat/input/httpjson/metrics_test.go
index 653523ec5a2..aed9b23c3f8 100644
--- a/x-pack/filebeat/input/httpjson/metrics_test.go
+++ b/x-pack/filebeat/input/httpjson/metrics_test.go
@@ -8,6 +8,9 @@ import (
 	"fmt"
 	"net/http"
 	"net/http/httptest"
+	"runtime"
+	"slices"
+	"strings"
 	"testing"
 	"time"
 
@@ -28,8 +31,12 @@ func TestMetrics(t *testing.T) {
 		handler        http.HandlerFunc
 		expectedEvents []string
 		assertMetrics  func(reg *monitoring.Registry) error
+
+		skipReason string // GOOS:reason or GOOS,GOOS,...:reason.
 	}{
 		{
+			skipReason: "windows:flakey test on windows - see https://github.com/elastic/beats/issues/39676",
+
 			name: "Test pagination metrics",
 			setupServer: func(t *testing.T, h http.HandlerFunc, config map[string]interface{}) {
 				server := httptest.NewServer(h)
@@ -102,6 +109,9 @@ func TestMetrics(t *testing.T) {
 	for _, testCase := range testCases {
 		tc := testCase
 		t.Run(tc.name, func(t *testing.T) {
+			if reason := skipReason(tc.skipReason); reason != "" {
+				t.Skipf("skipping %s", reason)
+			}
 			tc.setupServer(t, tc.handler, tc.baseConfig)
 
 			cfg := conf.MustNewConfigFrom(tc.baseConfig)
@@ -163,3 +173,17 @@ func TestMetrics(t *testing.T) {
 		})
 	}
 }
+
+func skipReason(s string) string {
+	if s == "" {
+		return ""
+	}
+	goos, reason, ok := strings.Cut(s, ":")
+	if !ok {
+		return s
+	}
+	if slices.Contains(strings.Split(goos, ","), runtime.GOOS) {
+		return reason
+	}
+	return ""
+}