diff --git a/lib/galaxy/dependencies/pinned-requirements.txt b/lib/galaxy/dependencies/pinned-requirements.txt
index 1ba8403cdfd..c15b151e646 100644
--- a/lib/galaxy/dependencies/pinned-requirements.txt
+++ b/lib/galaxy/dependencies/pinned-requirements.txt
@@ -64,7 +64,7 @@ ecdsa==0.18.0 ; python_version >= "3.8" and python_version < "3.12"
 edam-ontology==1.25.2 ; python_version >= "3.8" and python_version < "3.12"
 email-validator==2.1.0.post1 ; python_version >= "3.8" and python_version < "3.12"
 exceptiongroup==1.2.0 ; python_version >= "3.8" and python_version < "3.11"
-fastapi==0.98.0 ; python_version >= "3.8" and python_version < "3.12"
+fastapi==0.108.0 ; python_version >= "3.8" and python_version < "3.12"
 filelock==3.13.1 ; python_version >= "3.8" and python_version < "3.12"
 frozenlist==1.4.1 ; python_version >= "3.8" and python_version < "3.12"
 fs==2.4.16 ; python_version >= "3.8" and python_version < "3.12"
@@ -132,8 +132,8 @@ pyasn1==0.5.1 ; python_version >= "3.8" and python_version < "3.12"
 pycparser==2.21 ; python_version >= "3.8" and python_version < "3.12"
 pycryptodome==3.19.1 ; python_version >= "3.8" and python_version < "3.12"
 pydantic-tes==0.1.5 ; python_version >= "3.8" and python_version < "3.12"
-pydantic==1.10.13 ; python_version >= "3.8" and python_version < "3.12"
-pydantic[email]==1.10.13 ; python_version >= "3.8" and python_version < "3.12"
+pydantic==2.5.3 ; python_version >= "3.8" and python_version < "3.12"
+pydantic[email]==2.5.3 ; python_version >= "3.8" and python_version < "3.12"
 pydot==1.4.2 ; python_version >= "3.8" and python_version < "3.12"
 pyeventsystem==0.1.0 ; python_version >= "3.8" and python_version < "3.12"
 pyfaidx==0.7.2.2 ; python_version >= "3.8" and python_version < "3.12"
@@ -185,7 +185,7 @@ sqlitedict==2.1.0 ; python_version >= "3.8" and python_version < "3.12"
 sqlparse==0.4.4 ; python_version >= "3.8" and python_version < "3.12"
 starlette-context==0.3.6 ; python_version >= "3.8" and python_version < "3.12"
 starlette-graphene3==0.6.0 ; python_version >= "3.8" and python_version < "3.12"
-starlette==0.27.0 ; python_version >= "3.8" and python_version < "3.12"
+starlette==0.32.0.post1 ; python_version >= "3.8" and python_version < "3.12"
 supervisor==4.2.5 ; python_version >= "3.8" and python_version < "3.12"
 svgwrite==1.4.3 ; python_version >= "3.8" and python_version < "3.12"
 tenacity==8.2.3 ; python_version >= "3.8" and python_version < "3.12"
diff --git a/lib/galaxy/dependencies/pinned-typecheck-requirements.txt b/lib/galaxy/dependencies/pinned-typecheck-requirements.txt
index 57a3f369a2c..1ac4f9702c9 100644
--- a/lib/galaxy/dependencies/pinned-typecheck-requirements.txt
+++ b/lib/galaxy/dependencies/pinned-typecheck-requirements.txt
@@ -3,7 +3,7 @@ cryptography==41.0.7 ; python_version >= "3.8" and python_version < "3.12"
 mypy-extensions==1.0.0 ; python_version >= "3.8" and python_version < "3.12"
 mypy==1.8.0 ; python_version >= "3.8" and python_version < "3.12"
 pycparser==2.21 ; python_version >= "3.8" and python_version < "3.12"
-pydantic==1.10.13 ; python_version >= "3.8" and python_version < "3.12"
+pydantic==2.5.3 ; python_version >= "3.8" and python_version < "3.12"
 tomli==2.0.1 ; python_version >= "3.8" and python_version < "3.11"
 types-bleach==6.1.0.1 ; python_version >= "3.8" and python_version < "3.12"
 types-boto==2.49.18.9 ; python_version >= "3.8" and python_version < "3.12"
diff --git a/packages/web_apps/setup.cfg b/packages/web_apps/setup.cfg
index b767c9a5816..a979167ac63 100644
--- a/packages/web_apps/setup.cfg
+++ b/packages/web_apps/setup.cfg
@@ -43,7 +43,6 @@ install_requires =
     Babel
     Cheetah3
     fastapi>=0.101.0
-    fastapi-utils @ https://github.com/mvdbeek/fastapi-utils/archive/refs/heads/pydantic-2.zip
     gunicorn
     gxformat2
     importlib_resources
diff --git a/pyproject.toml b/pyproject.toml
index 619effdbb8e..0dfcab45d32 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -57,7 +57,7 @@ dnspython = "*"
 docutils = "!=0.17, !=0.17.1"
 dparse = "*"
 edam-ontology = "*"
-fastapi = ">=0.71.0, !=0.89.0, <0.99"  # https://github.com/tiangolo/fastapi/issues/4041 https://github.com/tiangolo/fastapi/issues/5861
+fastapi = ">=0.108"
 fs = "*"
 future = "*"
 galaxy_sequence_utils = "*"
@@ -87,7 +87,7 @@ pebble = "*"
 psutil = "*"
 pulsar-galaxy-lib = ">=0.15.0.dev0"
 pycryptodome = "*"
-pydantic = {version = "<2", extras = ["email"]}
+pydantic = {version = ">=2", extras = ["email"]}
 PyJWT = "*"
 pykwalify = "*"
 pylibmagic = "*"