diff --git a/pyproject.toml b/pyproject.toml
index d8c0dda27d..adb4a3d922 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -65,28 +65,28 @@ dev = [
   "jupyter>=1.1.1,<2.0.0",
   "myst-parser>=4.0.1,<5.0.0",
   "memory_profiler>=0.61.0,<0.62.0",
-  "mypy==1.13.0",
+  "mypy==1.20.0",
   "nbconvert>=7.17.0,<8.0.0",
   "nbdime>=4.0.2,<5.0.0",
   "nbsphinx>=0.8.7,<0.10.0",
-  "networkx>=2.6.3,<3.0.0",
+  "networkx>=2.6.3,<4.0.0",
   "optax>=0.2.2,<0.3.0",
-  "orbax-checkpoint<0.11.33",
+  "orbax-checkpoint<0.11.35",
   "psutil>=7.2.1,<8.0.0",
   "pre-commit>=4,<5",
-  "pydata-sphinx-theme>=0.13.3,<0.16.0",
-  "pygad==3.3.1",
+  "pydata-sphinx-theme>=0.13.3,<0.18.0",
+  "pygad==3.6.0",
   "pylint>=4.0.4,<5.0.0",
   "pyswarms>=1.3.0,<2.0.0",
   "pytest>=8.1,<10.0.0",
   "pytest-timeout>=2.4.0,<3.0.0",
   "pytest-xdist>=3.6.1,<4.0.0",
-  "pytest-cov>=6.0.0,<7.0.0",
+  "pytest-cov>=6.0.0,<8.0.0",
   "pytest-env>=1.1.5,<2.0.0",
   "pytest-testmon>=2.1.3,<3.0.0",
-  "rtree==1.2.0",
-  "ruff==0.11.11",
-  "sax>=0.11,<0.12",
+  "rtree==1.4.1",
+  "ruff==0.15.10",
+  "sax>=0.11,<0.15",
   "signac>=2.3.0,<3.0.0",
   "sphinx>=6,<9.0.0",
   "sphinx-book-theme>=1.0.1,<2.0.0",
@@ -106,7 +106,7 @@ dev = [
   "pyvista>=0.45,<0.48.0",
   "trame>=3.0.0,<4.0.0",
   "trame-vtk>=2.0.0,<3.0.0",
-  "trame-vuetify>=2.0.0,<3.0.0",
+  "trame-vuetify>=2.0.0,<4.0.0",
   "cma>=4.4.1,<5.0.0",
   "diff-cover>=10.1.0,<11.0.0",
   "openpyxl>=3.1.5,<4.0.0",
@@ -114,7 +114,7 @@ dev = [
   "libcst>=1.5.0,<2.0.0",
 ]
 tests = [
-  "orbax-checkpoint<0.11.33",
+  "orbax-checkpoint<0.11.35",
   "psutil>=7.2.1,<8.0.0",
   "pre-commit>=4,<5",
   "pylint>=4.0.4,<5.0.0",
@@ -122,14 +122,14 @@ tests = [
   "pytest-timeout>=2.4.0,<3.0.0",
   "pytest-xdist>=3.6.1,<4.0.0",
   "pytest-env>=1.1.5,<2.0.0",
-  "pytest-cov>=6.0.0,<7.0.0",
+  "pytest-cov>=6.0.0,<8.0.0",
   "pytest-testmon>=2.1.3,<3.0.0",
   "trimesh>=4.6,<5.0.0",
-  "networkx>=2.6.3,<3.0.0",
-  "rtree==1.2.0",
+  "networkx>=2.6.3,<4.0.0",
+  "rtree==1.4.1",
 ]
 docs = [
-  "orbax-checkpoint<0.11.33",
+  "orbax-checkpoint<0.11.35",
   "jupyter>=1.1.1,<2.0.0",
   "jinja2>=3.1.2,<4.0.0",
   "nbconvert>=7.17.0,<8.0.0",
@@ -140,7 +140,7 @@ docs = [
   "sphinx-copybutton>=0.5.2,<0.6.0",
   "sphinx-favicon>=1.0.1,<2.0.0",
   "sphinx-book-theme>=1.0.1,<2.0.0",
-  "pydata-sphinx-theme>=0.13.3,<0.16.0",
+  "pydata-sphinx-theme>=0.13.3,<0.18.0",
   "tmm>=0.2.0,<0.3.0",
   "gdstk>=0.9.49,<1.1",
   "grcwa>=0.1.2,<0.2.0",
@@ -149,7 +149,7 @@ docs = [
   "nbdime>=4.0.2,<5.0.0",
   "optax>=0.2.2,<0.3.0",
   "signac>=2.3.0,<3.0.0",
-  "sax>=0.11,<0.12",
+  "sax>=0.11,<0.15",
   "pylint>=4.0.4,<5.0.0",
   "sphinx-tabs>=3.4.7,<4.0.0",
   "sphinxemoji>=0.3.2,<0.4.0",
@@ -161,8 +161,8 @@ gdstk = ["gdstk>=0.9.49,<1.1"]
 scikit-rf = ["scikit-rf>=1.9.0,<2.0.0"]
 trimesh = [
   "trimesh>=4.6,<5.0.0",
-  "networkx>=2.6.3,<3.0.0",
-  "rtree==1.2.0",
+  "networkx>=2.6.3,<4.0.0",
+  "rtree==1.4.1",
 ]
 vtk = ["vtk>=9.6.0,<10.0.0"]
 pyvista = [
@@ -170,13 +170,13 @@ pyvista = [
   "vtk>=9.6.0,<10.0.0",
   "trame>=3.0.0,<4.0.0",
   "trame-vtk>=2.0.0,<3.0.0",
-  "trame-vuetify>=2.0.0,<3.0.0",
+  "trame-vuetify>=2.0.0,<4.0.0",
 ]
-ruff = ["ruff==0.11.11"]
+ruff = ["ruff==0.15.10"]
 heatcharge = [
   "trimesh>=4.6,<5.0.0",
-  "networkx>=2.6.3,<3.0.0",
-  "rtree==1.2.0",
+  "networkx>=2.6.3,<4.0.0",
+  "rtree==1.4.1",
   "vtk>=9.6.0,<10.0.0",
 ]
 pytorch = [
@@ -185,7 +185,7 @@ pytorch = [
 ]
 design = [
   "bayesian-optimization>=2.0.0,<4.0.0",
-  "pygad==3.3.1",
+  "pygad==3.6.0",
   "pyswarms>=1.3.0,<2.0.0",
 ]
 extras = ["tidy3d-extras==2.11.1"]