diff --git a/tests/integration/suite_test.go b/tests/integration/suite_test.go
index 7a016fb6b5..0b55c4c2a6 100644
--- a/tests/integration/suite_test.go
+++ b/tests/integration/suite_test.go
@@ -53,6 +53,9 @@ const (
 	// kubeconfigPath is the path of the file containing the kubeconfig
 	kubeconfigPath = "./build/kubeconfig"
 
+	// fluxBin is the path to the flux binary.
+	fluxBin = "./build/flux"
+
 	// default branch to be used when cloning git repositories
 	defaultBranch = "main"
 
@@ -291,6 +294,13 @@ func TestMain(m *testing.M) {
 		panic(fmt.Sprintf("error installing Flux: %v", err))
 	}
 
+	// On check failure, log and continue. Controllers may be ready by the time
+	// tests run.
+	log.Println("Running flux check")
+	if err := runFluxCheck(ctx); err != nil {
+		log.Printf("flux check failed: %v\n", err)
+	}
+
 	log.Println("Running e2e tests")
 	exitCode = m.Run()
 }
diff --git a/tests/integration/util_test.go b/tests/integration/util_test.go
index 2f6b6a6603..9d1c463708 100644
--- a/tests/integration/util_test.go
+++ b/tests/integration/util_test.go
@@ -92,17 +92,24 @@ func installFlux(ctx context.Context, tmpDir string, kubeconfigPath string) erro
 		bootstrapArgs = fmt.Sprintf("--token-auth --password=%s", cfg.gitPat)
 	}
 
-	bootstrapCmd := fmt.Sprintf("./build/flux bootstrap git  --url=%s %s --kubeconfig=%s --path=clusters/e2e "+
+	bootstrapCmd := fmt.Sprintf("%s bootstrap git  --url=%s %s --kubeconfig=%s --path=clusters/e2e "+
 		" --components-extra image-reflector-controller,image-automation-controller",
-		repoURL, bootstrapArgs, kubeconfigPath)
+		fluxBin, repoURL, bootstrapArgs, kubeconfigPath)
 
 	return tftestenv.RunCommand(ctx, "./", bootstrapCmd, tftestenv.RunCommandOptions{
 		Timeout: 15 * time.Minute,
 	})
 }
 
+func runFluxCheck(ctx context.Context) error {
+	checkCmd := fmt.Sprintf("%s check --kubeconfig %s", fluxBin, kubeconfigPath)
+	return tftestenv.RunCommand(ctx, "./", checkCmd, tftestenv.RunCommandOptions{
+		AttachConsole: true,
+	})
+}
+
 func uninstallFlux(ctx context.Context) error {
-	uninstallCmd := fmt.Sprintf("./build/flux uninstall --kubeconfig %s -s", kubeconfigPath)
+	uninstallCmd := fmt.Sprintf("%s uninstall --kubeconfig %s -s", fluxBin, kubeconfigPath)
 	if err := tftestenv.RunCommand(ctx, "./", uninstallCmd, tftestenv.RunCommandOptions{
 		Timeout: 15 * time.Minute,
 	}); err != nil {