diff --git a/.ruff.toml b/.ruff.toml
index e48daa90671..33af7fda773 100644
--- a/.ruff.toml
+++ b/.ruff.toml
@@ -12,7 +12,7 @@ max-locals = 30
 max-positional-args = 7
 
 [lint.per-file-ignores]
-"test/**.py" = ["PLR6301", "PLW1514", "PLR0914"]
+"test/**.py" = ["no-self-use", "unspecified-encoding", "too-many-locals"]
 
 [lint]
 select = [
@@ -31,34 +31,39 @@ select = [
   "PL",
   "UP",
   "W",
+  "RUF",
   "YTT",
 ]
 
 ignore = [
-  "C901", # https://docs.astral.sh/ruff/rules/complex-structure/
-  "D100", # https://docs.astral.sh/ruff/rules/undocumented-public-module/
-  "D101", # https://docs.astral.sh/ruff/rules/undocumented-public-class/
-  "D102", # https://docs.astral.sh/ruff/rules/undocumented-public-method/
-  "D103", # https://docs.astral.sh/ruff/rules/undocumented-public-function/
-  "D104", # https://docs.astral.sh/ruff/rules/undocumented-public-package/
-  "D105", # https://docs.astral.sh/ruff/rules/undocumented-magic-method/
-  "D203", # https://docs.astral.sh/ruff/rules/incorrect-blank-line-before-class/
-  "D213", # https://docs.astral.sh/ruff/rules/multi-line-summary-second-line/
-  "D107", # https://docs.astral.sh/ruff/rules/undocumented-public-init/
-  "B006", # https://docs.astral.sh/ruff/rules/mutable-argument-default/
-  "B011", # https://docs.astral.sh/ruff/rules/assert-false/
-  "B023", # https://docs.astral.sh/ruff/rules/function-uses-loop-variable/
-  "E501", # https://docs.astral.sh/ruff/rules/line-too-long/
-  "E741", # https://docs.astral.sh/ruff/rules/ambiguous-variable-name/
-  "PERF401", # https://docs.astral.sh/ruff/rules/manual-list-comprehension/
-  "PLR0904", # https://docs.astral.sh/ruff/rules/too-many-public-methods/
-  "PLR0912", # https://docs.astral.sh/ruff/rules/too-many-branches/
-  "PLR0913", # https://docs.astral.sh/ruff/rules/too-many-arguments/
-  "PLR0915", # https://docs.astral.sh/ruff/rules/too-many-statements/
-  "PLR1702", # https://docs.astral.sh/ruff/rules/too-many-nested-blocks/
-  "PLR2004", # https://docs.astral.sh/ruff/rules/magic-value-comparison/
-  "PLW0603", # https://docs.astral.sh/ruff/rules/global-statement/
-  "PLW1510", # https://docs.astral.sh/ruff/rules/subprocess-run-without-check/
-  "PLW2901", # https://docs.astral.sh/ruff/rules/redefined-loop-name/
-  "PLW1514", # https://docs.astral.sh/ruff/rules/unspecified-encoding/
+  "ambiguous-variable-name",
+  "assert-false",
+  "collection-literal-concatenation",
+  "complex-structure",
+  "float-equality-comparison",
+  "function-uses-loop-variable",
+  "global-statement",
+  "incorrect-blank-line-before-class",
+  "line-too-long",
+  "magic-value-comparison",
+  "manual-list-comprehension",
+  "multi-line-summary-second-line",
+  "mutable-argument-default",
+  "mutable-class-default",
+  "redefined-loop-name",
+  "subprocess-run-without-check",
+  "too-many-arguments",
+  "too-many-branches",
+  "too-many-nested-blocks",
+  "too-many-public-methods",
+  "too-many-statements",
+  "too-many-statements-in-try-clause",
+  "undocumented-magic-method",
+  "undocumented-public-class",
+  "undocumented-public-function",
+  "undocumented-public-init",
+  "undocumented-public-method",
+  "undocumented-public-module",
+  "undocumented-public-package",
+  "unspecified-encoding",
 ]
diff --git a/requirements-dev.txt b/requirements-dev.txt
index d64712fe2e8..500c11b34e0 100644
--- a/requirements-dev.txt
+++ b/requirements-dev.txt
@@ -3,6 +3,6 @@
 
 # Install with `pip3 install -r requirements-dev.txt`
 
-ruff==0.14.1
+ruff==0.16.0
 filecheck==0.0.22
 lit==0.11.0.post1
diff --git a/scripts/bundle_clusterfuzz.py b/scripts/bundle_clusterfuzz.py
index 5dcf56e86dc..6a526b47b1a 100755
--- a/scripts/bundle_clusterfuzz.py
+++ b/scripts/bundle_clusterfuzz.py
@@ -88,9 +88,11 @@
     # Delete the argument, as importing |shared| scans it.
     sys.argv.pop()
 
-from test import fuzzing # noqa
-from test import shared # noqa
-from test import support # noqa
+from test import (  # ruff: ignore[module-import-not-at-top-of-file]
+    fuzzing,
+    shared,
+    support,
+)
 
 # Pick where to get the builds
 if build_dir:
diff --git a/scripts/clusterfuzz/run.py b/scripts/clusterfuzz/run.py
index fe814a2b048..44f27a5f58e 100755
--- a/scripts/clusterfuzz/run.py
+++ b/scripts/clusterfuzz/run.py
@@ -218,7 +218,7 @@ def get_js_file_contents(i, output_dir):
         args = []
         if system_random.random() < 0.8:
             args = [f'--fuzz-import={wasm_file}']
-        second_wasm_contents, second_wasm_file = \
+        second_wasm_contents, _second_wasm_file = \
             get_wasm_contents(f'{i}_second', output_dir, args)
         pre += f'var secondBinary = {second_wasm_contents};\n'
         bytes += second_wasm_contents.count(',')
diff --git a/scripts/fuzz_opt.py b/scripts/fuzz_opt.py
index 5d290e3c876..a36282c17fc 100755
--- a/scripts/fuzz_opt.py
+++ b/scripts/fuzz_opt.py
@@ -25,7 +25,7 @@
 script covers different options being passed)
 """
 
-# ruff: noqa: COM819, ARG002
+# ruff: file-ignore[prohibited-trailing-comma, unused-method-argument]
 
 import contextlib
 import difflib
@@ -1149,7 +1149,7 @@ def fix_output_for_js(x):
             # of the wrong type - which would be cast on use, but if we remove
             # the casts, we end up returning null here and not 0, which the
             # fuzzer can notice.
-            x = re.sub(r' null', ' 0', x)
+            x = x.replace(r' null', ' 0')
 
             # wasm2js converts exports to valid JS forms, which affects some of
             # the names in the test suite. Fix those up.
@@ -2117,8 +2117,8 @@ def compare_to_merged_output(output, merged_output):
                 assert b.startswith(FUZZ_EXEC_NOTE_RESULT)
                 assert a.count(' => ') == 1
                 assert b.count(' => ') == 1
-                a_prefix, a_result = a.split(' => ')
-                b_prefix, b_result = b.split(' => ')
+                a_prefix, _a_result = a.split(' => ')
+                _b_prefix, b_result = b.split(' => ')
                 # Copy a's prefix with b's result.
                 merged_output_lines[i] = a_prefix + ' => ' + b_result
 
diff --git a/scripts/fuzz_relooper.py b/scripts/fuzz_relooper.py
index 4fd65e40c8e..03067bc0d54 100755
--- a/scripts/fuzz_relooper.py
+++ b/scripts/fuzz_relooper.py
@@ -16,7 +16,7 @@
 
 """Script that fuzzes the relooper using the C API."""
 
-# ruff: noqa: UP031
+# ruff: file-ignore[printf-string-formatting]
 
 import difflib
 import os
diff --git a/scripts/gen-s-parser.py b/scripts/gen-s-parser.py
index b56a7f50b9f..93c70b7d755 100755
--- a/scripts/gen-s-parser.py
+++ b/scripts/gen-s-parser.py
@@ -18,7 +18,7 @@
 
 assert sys.version_info >= (3, 10), 'requires Python 3.10'
 
-# ruff: noqa: E241
+# ruff: file-ignore[multiple-spaces-after-comma]
 
 instructions = [
     ("unreachable",    "makeUnreachable()"),
diff --git a/test/unit/test_fuzz_preserve.py b/test/unit/test_fuzz_preserve.py
index e1a3dc2fe93..3cfed2cc0cd 100644
--- a/test/unit/test_fuzz_preserve.py
+++ b/test/unit/test_fuzz_preserve.py
@@ -115,9 +115,8 @@ def process_wat(self, wat):
 
     # Given the types we saw for params or results, look in detail for the
     # things we expect to see.
-    def found_expected(self, data):
+    def found_expected(self, data):  # ruff: ignore[too-many-return-statements]
         # The many returns here seem to be the best way to write this code.
-        # ruff: noqa: PLR0911
 
         # Look for significant variety.
         if len(data) < 5: