diff --git a/src/specify_cli/extensions/__init__.py b/src/specify_cli/extensions/__init__.py
index 6d78354809..aee112c332 100644
--- a/src/specify_cli/extensions/__init__.py
+++ b/src/specify_cli/extensions/__init__.py
@@ -12,6 +12,7 @@
 import errno
 import hashlib
 import json
+import logging
 import os
 import re
 import shutil
@@ -45,6 +46,8 @@
 from ..catalogs import CatalogStackBase
 from ..shared_infra import verify_archive_sha256
 
+logger = logging.getLogger(__name__)
+
 _FALLBACK_CORE_COMMAND_NAMES = frozenset(
     {
         "analyze",
@@ -3508,18 +3511,15 @@ def get_active_catalogs(self) -> List[CatalogEntry]:
         Raises:
             ValidationError: If a catalog URL is invalid
         """
-        import sys
-
         # 1. SPECKIT_CATALOG_URL env var replaces all defaults for backward compat
         if env_value := os.environ.get("SPECKIT_CATALOG_URL"):
             catalog_url = env_value.strip()
             self._validate_catalog_url(catalog_url)
             if catalog_url != self.DEFAULT_CATALOG_URL:
                 if not getattr(self, "_non_default_catalog_warning_shown", False):
-                    print(
-                        "Warning: Using non-default extension catalog. "
+                    logger.warning(
+                        "Using non-default extension catalog. "
                         "Only use catalogs from sources you trust.",
-                        file=sys.stderr,
                     )
                     self._non_default_catalog_warning_shown = True
             return [
@@ -3743,8 +3743,6 @@ def _get_merged_extensions(
         Raises:
             ExtensionError: If all catalogs fail to fetch
         """
-        import sys
-
         active_catalogs = self.get_active_catalogs()
         merged: Dict[str, Dict[str, Any]] = {}
         any_success = False
@@ -3754,9 +3752,8 @@ def _get_merged_extensions(
                 catalog_data = self._fetch_single_catalog(catalog_entry, force_refresh)
                 any_success = True
             except ExtensionError as e:
-                print(
-                    f"Warning: Could not fetch catalog '{catalog_entry.name}': {e}",
-                    file=sys.stderr,
+                logger.warning(
+                    "Could not fetch catalog '%s': %s", catalog_entry.name, e,
                 )
                 continue
 
diff --git a/tests/test_extensions.py b/tests/test_extensions.py
index 3d9146d52b..de7518e48a 100644
--- a/tests/test_extensions.py
+++ b/tests/test_extensions.py
@@ -5936,6 +5936,39 @@ def test_download_extension_preserves_tar_archive_format(
         assert archive_path.name == "test-ext-1.0.0.tar.gz"
         assert archive_path.read_bytes() == archive_bytes
 
+    def test_catalog_fetch_failure_logged_as_warning(self, temp_dir, caplog):
+        """When a catalog fetch fails, the error must be logged at WARNING
+        level instead of being silently swallowed or printed to stderr."""
+        import logging
+        from pathlib import Path
+        from unittest.mock import patch
+        from specify_cli.extensions import ExtensionCatalog, ExtensionError
+
+        project_dir = temp_dir / "project"
+        project_dir.mkdir()
+        (project_dir / ".specify").mkdir()
+
+        catalog = ExtensionCatalog(project_dir)
+
+        entry = CatalogEntry(
+            url="https://example.com/broken-catalog.json",
+            name="broken",
+            priority=1,
+            install_allowed=True,
+        )
+
+        # Force _fetch_single_catalog to raise for all catalogs
+        with patch.object(catalog, "get_active_catalogs", return_value=[entry]), \
+             patch.object(catalog, "_fetch_single_catalog", side_effect=ExtensionError("network error")):
+            with caplog.at_level(logging.WARNING):
+                try:
+                    catalog._get_merged_extensions()
+                except ExtensionError:
+                    pass  # may still raise if all catalogs fail
+
+        assert any("broken" in record.message and "network error" in record.message
+                    for record in caplog.records if record.levelno == logging.WARNING)
+
 
 
 # ===== CatalogEntry Tests =====