diff --git a/pw_log/py/BUILD.bazel b/pw_log/py/BUILD.bazel
index 93ea9296bd..42382eacf1 100644
--- a/pw_log/py/BUILD.bazel
+++ b/pw_log/py/BUILD.bazel
@@ -12,6 +12,8 @@
 # License for the specific language governing permissions and limitations under
 # the License.
 
+load("@rules_python//python:defs.bzl", "py_library", "py_test")
+
 package(default_visibility = ["//visibility:public"])
 
 py_library(
@@ -22,22 +24,20 @@ py_library(
     ],
     imports = ["."],
     deps = [
-        # TODO: b/241456982 - Add this dep back in
-        # "//pw_log:log_proto_py_pb2",
+        "//pw_log:log_proto_py_pb2",
         "//pw_log_tokenized/py:pw_log_tokenized",
         "//pw_rpc/py:pw_rpc",
         "//pw_status/py:pw_status",
+        "//pw_tokenizer:tokenizer_proto_py_pb2",
         "//pw_tokenizer/py:pw_tokenizer",
     ],
 )
 
-# TODO: b/241456982 - Not expected to build yet.
 py_test(
     name = "log_decoder_test",
     srcs = [
         "log_decoder_test.py",
     ],
-    tags = ["manual"],
     deps = [
         ":pw_log",
     ],
diff --git a/pw_log/py/pw_log/__init__.py b/pw_log/py/pw_log/__init__.py
index c3e1bdbd5f..8e4d0e960a 100644
--- a/pw_log/py/pw_log/__init__.py
+++ b/pw_log/py/pw_log/__init__.py
@@ -11,3 +11,10 @@
 # WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the
 # License for the specific language governing permissions and limitations under
 # the License.
+"""pw_log Python libraries."""
+
+# The generated protos for this module overlap this `__init__.py` file's import
+# namespace, so we need to use extend_path() for them to be discoverable.
+# Note: this needs to be done in every nested `__init__.py` file as well (if
+# any exist).
+__path__ = __import__('pkgutil').extend_path(__path__, __name__)
diff --git a/pw_log_rpc/py/BUILD.bazel b/pw_log_rpc/py/BUILD.bazel
index 5c7f0fbf4b..b9794d0ae3 100644
--- a/pw_log_rpc/py/BUILD.bazel
+++ b/pw_log_rpc/py/BUILD.bazel
@@ -12,6 +12,8 @@
 # License for the specific language governing permissions and limitations under
 # the License.
 
+load("@rules_python//python:defs.bzl", "py_library", "py_test")
+
 package(default_visibility = ["//visibility:public"])
 
 py_library(
@@ -22,21 +24,18 @@ py_library(
     ],
     imports = ["."],
     deps = [
-        # TODO: b/241456982 - Add this dep back in
-        # "//pw_log:log_proto_py_pb2",
+        "//pw_log:log_proto_py_pb2",
         "//pw_log/py:pw_log",
         "//pw_rpc/py:pw_rpc",
         "//pw_status/py:pw_status",
     ],
 )
 
-# TODO: b/241456982 - Not expected to build yet.
 py_test(
     name = "rpc_log_stream_test",
     srcs = [
         "rpc_log_stream_test.py",
     ],
-    tags = ["manual"],
     deps = [
         ":pw_log_rpc",
     ],
diff --git a/pw_metric/BUILD.bazel b/pw_metric/BUILD.bazel
index e026bc63ed..9f89f80c8f 100644
--- a/pw_metric/BUILD.bazel
+++ b/pw_metric/BUILD.bazel
@@ -111,6 +111,8 @@ pw_proto_filegroup(
 proto_library(
     name = "metric_proto",
     srcs = [":metric_proto_and_options"],
+    # TODO: b/326636665 - Stripping the import prefix breaks nanopb compilation.
+    # strip_import_prefix = "/pw_metric",
 )
 
 py_proto_library(
diff --git a/pw_metric/py/BUILD.bazel b/pw_metric/py/BUILD.bazel
index 10d08f32c9..942f947b58 100644
--- a/pw_metric/py/BUILD.bazel
+++ b/pw_metric/py/BUILD.bazel
@@ -26,14 +26,14 @@ py_library(
     ],
     imports = ["."],
     deps = [
+        "//pw_metric:metric_proto_py_pb2",
         "//pw_rpc/py:pw_rpc",
         "//pw_tokenizer/py:pw_tokenizer",
-        # TODO: b/241456982 - Add this dep back in
-        # "//pw_metric:metric_proto_py_pb2",
     ],
 )
 
-# TODO: b/241456982 - Not expected to build yet.
+# TODO: b/326636665 - This test works, but requires strip_import_prefix on
+# the proto library, which breaks the nanopb libraries.
 py_test(
     name = "metric_parser_test",
     size = "small",
diff --git a/pw_system/py/BUILD.bazel b/pw_system/py/BUILD.bazel
index 777defe49d..85c3c179d4 100644
--- a/pw_system/py/BUILD.bazel
+++ b/pw_system/py/BUILD.bazel
@@ -16,17 +16,6 @@ load("@rules_python//python:defs.bzl", "py_binary", "py_library")
 
 package(default_visibility = ["//visibility:public"])
 
-# TODO: b/241456982 - The following deps are required to build :pw_system_lib
-# deps = [
-#     "//pw_thread/py:pw_thread",
-#     "//pw_log:log_proto_py_pb2",
-#     "//pw_metric:metric_proto_py_pb2",
-#     "//pw_thread:thread_proto_py_pb2",
-#     "//pw_thread:thread_snapshot_service_py_pb2",
-#     "//pw_tokenizer:tokenizer_proto_py_pb2",
-#     "//pw_unit_test:unit_test_py_pb2",
-#     "//pw_unit_test/py:pw_unit_test_lib",
-# ],
 py_library(
     name = "pw_system_lib",
     srcs = [
@@ -42,15 +31,23 @@ py_library(
         "//pw_console/py:pw_console",
         "//pw_file:file_proto_py_pb2",
         "//pw_hdlc/py:pw_hdlc",
+        "//pw_log:log_proto_py_pb2",
         "//pw_log/py:pw_log",
         "//pw_log_rpc/py:pw_log_rpc",
+        "//pw_metric:metric_proto_py_pb2",  # TODO: b/326636665 - Needs stripped import prefix.
         "//pw_metric/py:pw_metric",
         "//pw_rpc/py:pw_rpc",
+        "//pw_thread:thread_proto_py_pb2",
+        "//pw_thread:thread_snapshot_service_py_pb2",
+        "//pw_thread/py:pw_thread",
+        "//pw_tokenizer:tokenizer_proto_py_pb2",
         "//pw_tokenizer/py:pw_tokenizer",
         "//pw_trace/py:pw_trace",
-        "//pw_trace_tokenized:proto_py",
+        "//pw_trace_tokenized:proto_py",  # TODO: b/326636665 - Needs stripped import prefix.
         "//pw_trace_tokenized/py:pw_trace_tokenized",
         "//pw_transfer/py:pw_transfer",
+        "//pw_unit_test:unit_test_py_pb2",
+        "//pw_unit_test/py:pw_unit_test",
     ],
 )
 
diff --git a/pw_thread/py/BUILD.bazel b/pw_thread/py/BUILD.bazel
index 0940354210..d1b45f9a52 100644
--- a/pw_thread/py/BUILD.bazel
+++ b/pw_thread/py/BUILD.bazel
@@ -12,18 +12,17 @@
 # License for the specific language governing permissions and limitations under
 # the License.
 
+load("@rules_python//python:defs.bzl", "py_library", "py_test")
+
 package(default_visibility = ["//visibility:public"])
 
-# TODO: b/241456982 - Not expected to build. We need a dependency on a
-# py_proto_library built from thread_proto, but that in turn depends on
-# creating a py_proto_library for tokenizer_proto.
 py_library(
     name = "pw_thread",
     srcs = [
         "pw_thread/__init__.py",
         "pw_thread/thread_analyzer.py",
     ],
-    tags = ["manual"],
+    imports = ["."],
     deps = [
         "//pw_symbolizer/py:pw_symbolizer",
         "//pw_thread:thread_proto_py_pb2",
@@ -31,9 +30,7 @@ py_library(
     ],
 )
 
-# TODO: b/241456982 - Not expected to build. We need a dependency on a
-# py_proto_library built from thread_proto, but that in turn depends on
-# creating a py_proto_library for tokenizer_proto.
+# TODO: b/241307309 - Requires injection of a `llvm-symbolizer` tool to pass.
 py_test(
     name = "thread_analyzer_test",
     srcs = [
diff --git a/pw_trace/py/BUILD.bazel b/pw_trace/py/BUILD.bazel
index ebdcf17387..ce9af85970 100644
--- a/pw_trace/py/BUILD.bazel
+++ b/pw_trace/py/BUILD.bazel
@@ -22,4 +22,5 @@ py_library(
         "pw_trace/__init__.py",
         "pw_trace/trace.py",
     ],
+    imports = ["."],
 )
diff --git a/pw_trace_tokenized/BUILD.bazel b/pw_trace_tokenized/BUILD.bazel
index 7cf636d897..15eeb3117e 100644
--- a/pw_trace_tokenized/BUILD.bazel
+++ b/pw_trace_tokenized/BUILD.bazel
@@ -163,6 +163,8 @@ cc_library(
     ],
 )
 
+# TODO: b/326636665 - Needs stripped import prefix, but prefix modification
+# doesn't work with nanopb.
 proto_library(
     name = "protos",
     srcs = [
diff --git a/pw_trace_tokenized/py/BUILD.bazel b/pw_trace_tokenized/py/BUILD.bazel
index f353ff0547..1a2e83f80d 100644
--- a/pw_trace_tokenized/py/BUILD.bazel
+++ b/pw_trace_tokenized/py/BUILD.bazel
@@ -22,6 +22,7 @@ py_library(
         "pw_trace_tokenized/get_trace.py",
         "pw_trace_tokenized/trace_tokenized.py",
     ],
+    imports = ["."],
     deps = [
         "//pw_hdlc/py:pw_hdlc",
         "//pw_tokenizer/py:pw_tokenizer",
diff --git a/pw_transfer/py/pw_transfer/__init__.py b/pw_transfer/py/pw_transfer/__init__.py
index 55a0b61d6b..fafd070249 100644
--- a/pw_transfer/py/pw_transfer/__init__.py
+++ b/pw_transfer/py/pw_transfer/__init__.py
@@ -13,6 +13,12 @@
 # the License.
 """Provides a simple interface for transferring bulk data over pw_rpc."""
 
+# The generated protos for this module overlap this `__init__.py` file's import
+# namespace, so we need to use extend_path() for them to be discoverable.
+# Note: this needs to be done in every nested `__init__.py` file as well (if
+# any exist).
+__path__ = __import__('pkgutil').extend_path(__path__, __name__)
+
 from pw_transfer.transfer import (
     ProgressCallback,
     ProgressStats,
diff --git a/pw_unit_test/py/BUILD.bazel b/pw_unit_test/py/BUILD.bazel
index 8915b04e48..bcc00bd96b 100644
--- a/pw_unit_test/py/BUILD.bazel
+++ b/pw_unit_test/py/BUILD.bazel
@@ -17,12 +17,13 @@ load("@rules_python//python:defs.bzl", "py_library")
 package(default_visibility = ["//visibility:public"])
 
 py_library(
-    name = "pw_unit_test_lib",
+    name = "pw_unit_test",
     srcs = [
         "pw_unit_test/__init__.py",
         "pw_unit_test/rpc.py",
         "pw_unit_test/test_runner.py",
     ],
+    imports = ["."],
     deps = [
         "//pw_cli/py:pw_cli",
         "//pw_rpc/py:pw_rpc",