diff --git a/x-pack/plugins/observability_solution/apm/public/components/app/settings/agent_configurations/list/confirm_delete_modal.tsx b/x-pack/plugins/observability_solution/apm/public/components/app/settings/agent_configurations/list/confirm_delete_modal.tsx
index 914c664946fc2..0fe71a9f0ca0d 100644
--- a/x-pack/plugins/observability_solution/apm/public/components/app/settings/agent_configurations/list/confirm_delete_modal.tsx
+++ b/x-pack/plugins/observability_solution/apm/public/components/app/settings/agent_configurations/list/confirm_delete_modal.tsx
@@ -66,11 +66,9 @@ async function deleteConfig(config: Config, toasts: NotificationsStart['toasts']
     await callApmApi('DELETE /api/apm/settings/agent-configuration 2023-10-31', {
       signal: null,
       params: {
-        body: {
-          service: {
-            name: config.service.name,
-            environment: config.service.environment,
-          },
+        query: {
+          serviceName: config.service.name,
+          serviceEnvironment: config.service.environment,
         },
       },
     });
diff --git a/x-pack/plugins/observability_solution/apm/server/routes/settings/agent_configuration/route.ts b/x-pack/plugins/observability_solution/apm/server/routes/settings/agent_configuration/route.ts
index bc8109dfa2808..7358773a4dc6d 100644
--- a/x-pack/plugins/observability_solution/apm/server/routes/settings/agent_configuration/route.ts
+++ b/x-pack/plugins/observability_solution/apm/server/routes/settings/agent_configuration/route.ts
@@ -96,7 +96,7 @@ const getSingleAgentConfigurationRoute = createApmServerRoute({
 });
 
 // delete configuration
-const deleteAgentConfigurationRoute = createApmServerRoute({
+const deleteAgentConfigurationBodyRoute = createApmServerRoute({
   endpoint: 'DELETE /api/apm/settings/agent-configuration 2023-10-31',
   options: {
     tags: ['access:apm', 'access:apm_settings_write'],
@@ -110,8 +110,73 @@ const deleteAgentConfigurationRoute = createApmServerRoute({
   handler: async (resources): Promise<{ result: string }> => {
     throwNotFoundIfAgentConfigNotAvailable(resources.featureFlags);
 
-    const { params, logger, core, telemetryUsageCounter } = resources;
     const { service } = params.body;
+
+    const apmIndices = await resources.getApmIndices();
+    const [internalESClient, apmEventClient] = await Promise.all([
+      createInternalESClientWithResources(resources),
+      getApmEventClient(resources),
+    ]);
+    const exactConfig = await findExactConfiguration({
+      service,
+      internalESClient,
+      apmEventClient,
+    });
+    if (!exactConfig) {
+      logger.info(`Config was not found for ${service.name}/${service.environment}`);
+
+      throw Boom.notFound();
+    }
+
+    logger.info(`Deleting config ${service.name}/${service.environment} (${exactConfig.id})`);
+
+    const deleteConfigurationResult = await deleteConfiguration({
+      configurationId: exactConfig.id!,
+      internalESClient,
+    });
+
+    if (resources.plugins.fleet) {
+      await syncAgentConfigsToApmPackagePolicies({
+        coreStartPromise: core.start(),
+        fleetPluginStart: await resources.plugins.fleet.start(),
+        internalESClient,
+        apmIndices,
+        telemetryUsageCounter,
+      });
+      logger.info(
+        `Updated Fleet integration policy for APM to remove the deleted agent configuration.`
+      );
+    }
+
+    return deleteConfigurationResult;
+  },
+});
+
+// delete configuration
+const deleteAgentConfigurationQueryRoute = createApmServerRoute({
+  endpoint: 'DELETE /api/apm/settings/agent-configuration 2023-10-31',
+  options: {
+    tags: ['access:apm', 'access:apm_settings_write'],
+    access: 'public',
+  },
+  params: t.partial({
+    query: t.intersection([
+      t.partial({ serviceName: t.string }),
+      t.partial({ serviceEnvironment: t.string }),
+    ]),
+  }),
+  handler: async (resources): Promise<{ result: string }> => {
+    throwNotFoundIfAgentConfigNotAvailable(resources.featureFlags);
+
+    const { params, logger, core, telemetryUsageCounter } = resources;
+    const { serviceName, serviceEnvironment } = params.query;
+    const name = serviceName ? decodeURIComponent(serviceName) : undefined;
+    const environment = serviceEnvironment ? decodeURIComponent(serviceEnvironment) : undefined;
+    const service = {
+      name,
+      environment,
+    };
+
     const apmIndices = await resources.getApmIndices();
     const [internalESClient, apmEventClient] = await Promise.all([
       createInternalESClientWithResources(resources),
@@ -347,7 +412,8 @@ const agentConfigurationAgentNameRoute = createApmServerRoute({
 export const agentConfigurationRouteRepository = {
   ...agentConfigurationRoute,
   ...getSingleAgentConfigurationRoute,
-  ...deleteAgentConfigurationRoute,
+  ...deleteAgentConfigurationBodyRoute,
+  ...deleteAgentConfigurationQueryRoute,
   ...createOrUpdateAgentConfigurationRoute,
   ...agentConfigurationSearchRoute,
   ...listAgentConfigurationEnvironmentsRoute,
diff --git a/x-pack/test/apm_api_integration/tests/feature_controls.spec.ts b/x-pack/test/apm_api_integration/tests/feature_controls.spec.ts
index 5ffc8c29c3495..eb47c774aab9b 100644
--- a/x-pack/test/apm_api_integration/tests/feature_controls.spec.ts
+++ b/x-pack/test/apm_api_integration/tests/feature_controls.spec.ts
@@ -55,7 +55,7 @@ export default function featureControlsTests({ getService }: FtrProviderContext)
   }
 
   function deleteAgent(
-    body: APIClientRequestParamsOf<'DELETE /api/apm/settings/agent-configuration 2023-10-31'>['params']['body']
+    query: APIClientRequestParamsOf<'DELETE /api/apm/settings/agent-configuration 2023-10-31'>['params']['body']
   ) {
     return apmApiClient.writeUser({
       endpoint: 'DELETE /api/apm/settings/agent-configuration 2023-10-31',
diff --git a/x-pack/test/apm_api_integration/tests/fleet/apm_package_policy.spec.ts b/x-pack/test/apm_api_integration/tests/fleet/apm_package_policy.spec.ts
index 9ef09aaf58cb0..d67a58cbac95d 100644
--- a/x-pack/test/apm_api_integration/tests/fleet/apm_package_policy.spec.ts
+++ b/x-pack/test/apm_api_integration/tests/fleet/apm_package_policy.spec.ts
@@ -53,10 +53,24 @@ export default function ApiTest(ftrProviderContext: FtrProviderContext) {
     });
   }
 
+  async function deleteConfigurationQuery(configuration: any) {
+    return apmApiClient.writeUser({
+      endpoint: 'DELETE /api/apm/settings/agent-configuration 2023-10-31',
+      params: {
+        query: {
+          name: configuration.service.name,
+          environment: configuration.service.environment,
+        },
+      },
+    });
+  }
+
   async function deleteConfiguration(configuration: any) {
     return apmApiClient.writeUser({
       endpoint: 'DELETE /api/apm/settings/agent-configuration 2023-10-31',
-      params: { body: { service: configuration.service } },
+      params: {
+        body: { service: configuration.service },
+      },
     });
   }
 
@@ -196,6 +210,29 @@ export default function ApiTest(ftrProviderContext: FtrProviderContext) {
         });
       });
 
+      describe('Agent config with query DELETE', () => {
+        let packagePolicyWithAgentConfig: PackagePolicy;
+        const testConfiguration = {
+          service: {},
+          settings: { transaction_sample_rate: '0.55' },
+        };
+        before(async () => {
+          await createConfiguration(testConfiguration);
+          packagePolicyWithAgentConfig = await getPackagePolicy(bettertest, packagePolicyId);
+        });
+
+        after(async () => {
+          await deleteConfigurationQuery(testConfiguration);
+        });
+
+        it('sets the expected agent configs on the new package policy object', async () => {
+          const agentConfigs = get(packagePolicyWithAgentConfig, AGENT_CONFIG_PATH)!;
+          const { service, config } = agentConfigs[0];
+          expect(service).to.eql({});
+          expect(config).to.eql({ transaction_sample_rate: '0.55' });
+        });
+      });
+
       describe('Source maps', () => {
         let resp: APIReturnType<'POST /api/apm/sourcemaps 2023-10-31'>;
 
diff --git a/x-pack/test/apm_api_integration/tests/settings/agent_configuration/agent_configuration.spec.ts b/x-pack/test/apm_api_integration/tests/settings/agent_configuration/agent_configuration.spec.ts
index a490c89a32778..cfd0bc73c96ff 100644
--- a/x-pack/test/apm_api_integration/tests/settings/agent_configuration/agent_configuration.spec.ts
+++ b/x-pack/test/apm_api_integration/tests/settings/agent_configuration/agent_configuration.spec.ts
@@ -95,7 +95,7 @@ export default function agentConfigurationTests({ getService }: FtrProviderConte
     return apmApiClient.readUser({
       endpoint: 'GET /api/apm/settings/agent-configuration/view 2023-10-31',
       params: {
-        query: {
+        body: {
           name,
           environment,
         },