diff --git a/x-pack/plugins/observability_solution/observability_onboarding/public/assets/auto_detect.sh b/x-pack/plugins/observability_solution/observability_onboarding/public/assets/auto_detect.sh
index 30d093cf515dfc..ebdcdeb0d81dce 100755
--- a/x-pack/plugins/observability_solution/observability_onboarding/public/assets/auto_detect.sh
+++ b/x-pack/plugins/observability_solution/observability_onboarding/public/assets/auto_detect.sh
@@ -289,16 +289,16 @@ apply_elastic_agent_config() {
   local decoded_ingest_api_key=$(echo "$ingest_api_key_encoded" | base64 -d)
 
   # Verify that the downloaded archive contains the expected `elastic-agent.yml` file
-  tar --list --file "$elastic_agent_tmp_config_path" --include 'elastic-agent.yml' >/dev/null &&
+  tar --list --file "$elastic_agent_tmp_config_path" | grep "$(basename "$elastic_agent_config_path")" >/dev/null &&
     # Remove existing config file including `inputs.d` directory
     rm -rf "$elastic_agent_config_path" "$(dirname "$elastic_agent_config_path")/inputs.d" &&
     # Extract new config files from downloaded archive
-    tar --extract --file "$elastic_agent_tmp_config_path" --include 'elastic-agent.yml' --include 'inputs.d/*.yml' --directory "$(dirname "$elastic_agent_config_path")" &&
+    tar --extract --file "$elastic_agent_tmp_config_path" --directory "$(dirname "$elastic_agent_config_path")" &&
     # Replace placeholder with the Ingest API key
-    sed -i '' "s/\${API_KEY}/$decoded_ingest_api_key/" "$elastic_agent_config_path"
+    sed -i='' "s/\${API_KEY}/$decoded_ingest_api_key/" "$elastic_agent_config_path"
   if [ "$?" -eq 0 ]; then
     printf "\e[1;32m✓\e[0m %s\n" "Config written to:"
-    tar --list --file "$elastic_agent_tmp_config_path" --include 'elastic-agent.yml' --include 'inputs.d/*.yml' | while read -r file; do
+    tar --list --file "$elastic_agent_tmp_config_path" | grep '\.yml$' | while read -r file; do
       echo "  - $(dirname "$elastic_agent_config_path")/$file"
     done
 
diff --git a/x-pack/plugins/observability_solution/observability_onboarding/server/routes/flow/route.ts b/x-pack/plugins/observability_solution/observability_onboarding/server/routes/flow/route.ts
index 1589269d99aa8d..229ce3bf252d0e 100644
--- a/x-pack/plugins/observability_solution/observability_onboarding/server/routes/flow/route.ts
+++ b/x-pack/plugins/observability_solution/observability_onboarding/server/routes/flow/route.ts
@@ -263,9 +263,12 @@ const createFlowRoute = createObservabilityOnboardingServerRoute({
  *
  * The request format is TSV (tab-separated values) to simplify parsing in bash.
  *
- * The response format is either a YAML file or a tarball containing the Elastic Agent
+ * The response format is either a YAML file or a tar archive containing the Elastic Agent
  * configuration, depending on the `Accept` header.
  *
+ * Errors during installation are ignore unless all integrations fail to install. When that happens
+ * a 500 Internal Server Error is returned with the first error message.
+ *
  * Example request:
  *
  * ```text
@@ -335,10 +338,21 @@ const integrationsInstallRoute = createObservabilityOnboardingServerRoute({
 
     let installedIntegrations: InstalledIntegration[] = [];
     try {
-      installedIntegrations = await ensureInstalledIntegrations(
+      const settledResults = await ensureInstalledIntegrations(
         integrationsToInstall,
         packageClient
       );
+      installedIntegrations = settledResults.reduce<InstalledIntegration[]>((acc, result) => {
+        if (result.status === 'fulfilled') {
+          acc.push(result.value);
+        }
+        return acc;
+      }, []);
+      // Errors during installation are ignore unless all integrations fail to install. When that happens
+      // a 500 Internal Server Error is returned with the first error message.
+      if (!installedIntegrations.length) {
+        throw (settledResults[0] as PromiseRejectedResult).reason;
+      }
     } catch (error) {
       if (error instanceof FleetUnauthorizedError) {
         return response.forbidden({
@@ -401,8 +415,8 @@ export type IntegrationToInstall = RegistryIntegrationToInstall | CustomIntegrat
 async function ensureInstalledIntegrations(
   integrationsToInstall: IntegrationToInstall[],
   packageClient: PackageClient
-): Promise<InstalledIntegration[]> {
-  return Promise.all(
+): Promise<Array<PromiseSettledResult<InstalledIntegration>>> {
+  return Promise.allSettled(
     integrationsToInstall.map(async (integration) => {
       const { pkgName, installSource } = integration;