diff --git a/requirements.txt b/requirements.txt
index 90b1da5b1..c8f7757a0 100644
--- a/requirements.txt
+++ b/requirements.txt
@@ -463,6 +463,9 @@ tqdm==4.67.1
     #   google-generativeai
     #   huggingface-hub
     #   openai
+    # via
+    #   -c requirements/common-constraints.txt
+    #   tree-sitter-language-pack
 tree-sitter-c-sharp==0.23.1
     # via
     #   -c requirements/common-constraints.txt
@@ -519,8 +522,7 @@ zipp==3.21.0
     #   -c requirements/common-constraints.txt
     #   importlib-metadata
 
-tree-sitter==0.23.2; python_version < "3.10"
-tree-sitter==0.24.0; python_version >= "3.10"
+tree-sitter>=0.24.0
 
 # Remove if Python 3.13 support https://github.com/jiaaro/pydub/pull/816 gets released
 audioop-lts>=0.2.1; python_version >= "3.13"
diff --git a/requirements/common-constraints.txt b/requirements/common-constraints.txt
index 8e13c8d73..40a023aba 100644
--- a/requirements/common-constraints.txt
+++ b/requirements/common-constraints.txt
@@ -235,7 +235,7 @@ kiwisolver==1.4.8
     # via matplotlib
 litellm==1.68.1
     # via -r requirements/requirements.in
-llama-index-core==0.12.26
+llama-index-core==0.12.31
     # via
     #   -r requirements/requirements-help.in
     #   llama-index-embeddings-huggingface
@@ -608,7 +608,3 @@ yarl==1.20.0
     # via aiohttp
 zipp==3.21.0
     # via importlib-metadata
-
-# The following packages are considered to be unsafe in a requirements file:
-# pip
-# setuptools
diff --git a/requirements/requirements-dev.txt b/requirements/requirements-dev.txt
index 2a5ed21ca..64166e37b 100644
--- a/requirements/requirements-dev.txt
+++ b/requirements/requirements-dev.txt
@@ -309,7 +309,3 @@ wheel==0.45.1
     # via
     #   -c requirements/common-constraints.txt
     #   pip-tools
-
-# The following packages are considered to be unsafe in a requirements file:
-# pip
-# setuptools
diff --git a/requirements/requirements-help.in b/requirements/requirements-help.in
index 1bddc8d02..a294fc25d 100644
--- a/requirements/requirements-help.in
+++ b/requirements/requirements-help.in
@@ -7,5 +7,5 @@ numpy>=2
 # https://discuss.pytorch.org/t/why-no-macosx-x86-64-build-after-torch-2-2-2-cp39-none-macosx-10-9-x86-64-whl/204546/2
 torch>2.2.2
 
-# Later versions break test_help in GitHub Actions on Windows and Ubuntu
-llama-index-core==0.12.26
+# Some llama-index-core versions > 0.12.26 broke test_help in GitHub Actions on Windows and Ubuntu
+llama-index-core>=0.12.31
diff --git a/requirements/requirements-help.txt b/requirements/requirements-help.txt
index 3fd49588b..9ac79b635 100644
--- a/requirements/requirements-help.txt
+++ b/requirements/requirements-help.txt
@@ -129,7 +129,7 @@ joblib==1.5.0
     #   -c requirements/common-constraints.txt
     #   nltk
     #   scikit-learn
-llama-index-core==0.12.26
+llama-index-core==0.12.31
     # via
     #   -c requirements/common-constraints.txt
     #   -r requirements/requirements-help.in
@@ -245,6 +245,10 @@ sentence-transformers==4.1.0
     # via
     #   -c requirements/common-constraints.txt
     #   llama-index-embeddings-huggingface
+setuptools==78.1.0
+    # via
+    #   -c requirements/common-constraints.txt
+    #   torch
 sniffio==1.3.1
     # via
     #   -c requirements/common-constraints.txt
@@ -324,6 +328,3 @@ yarl==1.20.0
     # via
     #   -c requirements/common-constraints.txt
     #   aiohttp
-
-# The following packages are considered to be unsafe in a requirements file:
-# setuptools
diff --git a/requirements/tree-sitter.in b/requirements/tree-sitter.in
index 9ba57296a..32c5c8159 100644
--- a/requirements/tree-sitter.in
+++ b/requirements/tree-sitter.in
@@ -1,2 +1 @@
-tree-sitter==0.23.2; python_version < "3.10"
-tree-sitter==0.24.0; python_version >= "3.10"
+tree-sitter>=0.24.0
diff --git a/scripts/pip-compile.sh b/scripts/pip-compile.sh
index 5255afc15..5181bcb39 100755
--- a/scripts/pip-compile.sh
+++ b/scripts/pip-compile.sh
@@ -6,8 +6,11 @@ set -e
 # Add verbosity flag to see more details about dependency resolution
 VERBOSITY="-v"  # Use -v for less detail, -vvv for even more detail
 
+# Attention: uv doesn't update to minor releases when output-file exists!
+
 # First compile the common constraints of the full requirement suite
 # to make sure that all versions are mutually consistent across files
+rm requirements/common-constraints.txt
 uv pip compile \
     $VERBOSITY \
     --no-strip-extras \
@@ -17,6 +20,7 @@ uv pip compile \
     $1
 
 # Compile the base requirements
+rm tmp.requirements.txt
 uv pip compile \
     $VERBOSITY \
     --no-strip-extras \
@@ -35,6 +39,7 @@ uv pip compile \
 SUFFIXES=(dev help browser playwright)
 
 for SUFFIX in "${SUFFIXES[@]}"; do
+    rm requirements/requirements-${SUFFIX}.txt
     uv pip compile \
         $VERBOSITY \
         --no-strip-extras \
@@ -43,3 +48,10 @@ for SUFFIX in "${SUFFIXES[@]}"; do
         requirements/requirements-${SUFFIX}.in \
         $1
 done
+
+# There were too many different versions required in torch
+# https://github.com/pytorch/pytorch/issues/145225
+# https://github.com/pytorch/pytorch/pull/147197
+# https://github.com/pytorch/pytorch/issues/151312
+sed -i '' 's/^sympy==1.13.1$/sympy==1.13.3/g' requirements/common-constraints.txt requirements/requirements-help.txt
+