diff --git a/desloppify/languages/_framework/generic_parts/tool_runner.py b/desloppify/languages/_framework/generic_parts/tool_runner.py
index 095f6db15..ca45ee394 100644
--- a/desloppify/languages/_framework/generic_parts/tool_runner.py
+++ b/desloppify/languages/_framework/generic_parts/tool_runner.py
@@ -12,6 +12,12 @@
 from pathlib import Path
 from typing import Literal
 
+from desloppify.base.discovery.file_paths import (
+    matches_exclusion,
+    rel,
+    resolve_scan_file,
+)
+from desloppify.base.discovery.source import get_exclusions
 from desloppify.languages._framework.generic_parts.parsers import ToolParserError
 
 SubprocessRun = Callable[..., subprocess.CompletedProcess[str]]
@@ -180,9 +186,24 @@ def run_tool_result(
             meta=meta,
             returncode=result.returncode,
         )
+    # External tools discover their own files and may ignore our exclusions.
+    # Filter only after validating parsed output: a nonzero lint result whose
+    # diagnostics are all excluded is still a successful, empty detector run.
+    exclusions = get_exclusions()
+    if exclusions:
+        parsed_entries = [
+            entry
+            for entry in parsed_entries
+            if not any(
+                matches_exclusion(
+                    rel(resolve_scan_file(entry["file"], scan_root=path)), exclusion
+                )
+                for exclusion in exclusions
+            )
+        ]
     return ToolRunResult(
         entries=parsed_entries,
-        status="ok",
+        status="ok" if parsed_entries else "empty",
         meta=meta,
         returncode=result.returncode,
     )
diff --git a/desloppify/tests/lang/common/test_generic_tool_exclusions.py b/desloppify/tests/lang/common/test_generic_tool_exclusions.py
new file mode 100644
index 000000000..b4f843091
--- /dev/null
+++ b/desloppify/tests/lang/common/test_generic_tool_exclusions.py
@@ -0,0 +1,133 @@
+"""Generic external tools must honor the scan's configured exclusions."""
+
+from __future__ import annotations
+
+import json
+import subprocess
+from pathlib import Path
+from unittest.mock import patch
+
+import pytest
+
+from desloppify.base.runtime_state import RuntimeContext, runtime_scope
+from desloppify.languages._framework.generic_parts.parsers import (
+    parse_json,
+    parse_next_lint,
+)
+from desloppify.languages._framework.generic_parts.tool_factories import (
+    make_detect_fn,
+    make_tool_phase,
+)
+from desloppify.languages._framework.generic_parts.tool_runner import run_tool_result
+
+
+@pytest.mark.parametrize("consumer", ["phase", "detect"])
+@pytest.mark.parametrize("absolute", [False, True])
+@pytest.mark.parametrize("exclusion", ["ios/.build", "ios/.build/**"])
+def test_nested_scan_filters_tool_findings_using_project_exclusions(
+    tmp_path: Path, consumer: str, absolute: bool, exclusion: str
+):
+    scan_path = tmp_path / "ios"
+    entries = [
+        {"file": ".build/debug/runner.swift", "line": 1, "reason": "generated"},
+        {"file": "Atlas/App.swift", "line": 2, "reason": "source"},
+        {"file": ".build-tools/Keep.swift", "line": 3, "reason": "similar name"},
+    ]
+    for entry in entries:
+        file = scan_path / entry["file"]
+        file.parent.mkdir(parents=True, exist_ok=True)
+        file.touch()
+    if absolute:
+        entries = [
+            {**entry, "file": str(scan_path / entry["file"])} for entry in entries
+        ]
+    output = subprocess.CompletedProcess(
+        args="swiftlint", returncode=2, stdout=json.dumps(entries), stderr=""
+    )
+    runtime = RuntimeContext(project_root=tmp_path, exclusions=(exclusion,))
+
+    with runtime_scope(runtime), patch("subprocess.run", return_value=output):
+        if consumer == "phase":
+            phase = make_tool_phase(
+                "swiftlint",
+                "swiftlint lint --reporter json",
+                "json",
+                "swiftlint_violation",
+                2,
+            )
+            findings, potentials = phase.run(scan_path, None)
+            assert [finding["summary"] for finding in findings] == [
+                "source",
+                "similar name",
+            ]
+            assert potentials == {"swiftlint_violation": 2}
+        else:
+            detect = make_detect_fn("swiftlint lint --reporter json", parse_json)
+            findings = detect(scan_path)
+            assert [finding["message"] for finding in findings] == [
+                "source",
+                "similar name",
+            ]
+
+
+def test_only_excluded_diagnostics_do_not_report_tool_failure(tmp_path: Path):
+    generated = tmp_path / "ios/.build/runner.swift"
+    generated.parent.mkdir(parents=True)
+    generated.touch()
+    output = subprocess.CompletedProcess(
+        args="swiftlint",
+        returncode=2,
+        stdout=json.dumps(
+            [{"file": ".build/runner.swift", "line": 1, "reason": "generated"}]
+        ),
+        stderr="",
+    )
+    runtime = RuntimeContext(project_root=tmp_path, exclusions=("ios/.build",))
+
+    with runtime_scope(runtime):
+        result = run_tool_result(
+            "swiftlint lint --reporter json",
+            tmp_path / "ios",
+            parse_json,
+            run_subprocess=lambda *_args, **_kwargs: output,
+        )
+
+    assert result.entries == []
+    assert result.status == "empty"
+    assert result.error_kind is None
+    assert result.returncode == 2
+
+
+def test_already_project_relative_parser_paths_are_not_rebased_twice(tmp_path: Path):
+    generated = tmp_path / "apps/web/generated/component.tsx"
+    generated.parent.mkdir(parents=True)
+    generated.touch()
+    output = subprocess.CompletedProcess(
+        args="next",
+        returncode=1,
+        stdout=json.dumps(
+            [
+                {
+                    "filePath": str(generated),
+                    "messages": [{"line": 1, "message": "generated"}],
+                },
+                {"filePath": str(tmp_path / "apps/web/clean.tsx"), "messages": []},
+            ]
+        ),
+        stderr="",
+    )
+    runtime = RuntimeContext(project_root=tmp_path, exclusions=("apps/web/generated",))
+
+    with runtime_scope(runtime):
+        result = run_tool_result(
+            "next lint --format json",
+            tmp_path / "apps/web",
+            parse_next_lint,
+            run_subprocess=lambda *_args, **_kwargs: output,
+        )
+
+    assert result.entries == []
+    assert result.status == "empty"
+    assert result.meta == {"potential": 2}, (
+        "Aggregate metadata cannot be recomputed from retained diagnostics."
+    )