diff --git a/Cargo.lock b/Cargo.lock
index ec5c2edfdf550e..486740aa61e562 100644
--- a/Cargo.lock
+++ b/Cargo.lock
@@ -1589,11 +1589,11 @@ dependencies = [
 
 [[package]]
 name = "deno_ast"
-version = "0.46.2"
+version = "0.46.5"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "b5700894f83f8d6a7507ed0667b27b812afbfe9bfdfd4d574191023a9c8c3a11"
+checksum = "57fa4986eb7deb465906266ee29faa26566d33f8b6a755ac93d49730164ae5e8"
 dependencies = [
- "base64 0.21.7",
+ "base64 0.22.1",
  "deno_error",
  "deno_media_type",
  "deno_terminal 0.2.2",
@@ -3254,9 +3254,9 @@ dependencies = [
 
 [[package]]
 name = "dprint-swc-ext"
-version = "0.22.1"
+version = "0.23.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "1716eda64b75d22f36c641fbb1ba097529259e4c152695e7670b96f9498fc926"
+checksum = "569b85f94c1e7d1065874115193cf081d658ebb01213d54fda357516837a17fc"
 dependencies = [
  "allocator-api2",
  "bumpalo",
@@ -3665,6 +3665,12 @@ version = "0.4.2"
 source = "registry+https://github.com/rust-lang/crates.io-index"
 checksum = "0ce7134b9999ecaf8bcd65542e436736ef32ddca1b3e06094cb6ec5755203b80"
 
+[[package]]
+name = "fixedbitset"
+version = "0.5.7"
+source = "registry+https://github.com/rust-lang/crates.io-index"
+checksum = "1d674e81391d1e1ab681a28d99df07927c6d4aa5b027d7da16ba32d1d21ecd99"
+
 [[package]]
 name = "flaky_test"
 version = "0.2.2"
@@ -5796,9 +5802,9 @@ dependencies = [
 
 [[package]]
 name = "once_cell"
-version = "1.20.2"
+version = "1.21.3"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "1261fe7e33c73b354eab43b1273a57c8f967d0391e80353e51f764ac02cf6775"
+checksum = "42f5e15c9953c5e4ccceeb2e7382a716482c34515315f7b03532b8b4e8393d2d"
 
 [[package]]
 name = "opaque-debug"
@@ -6013,6 +6019,25 @@ dependencies = [
  "sha2",
 ]
 
+[[package]]
+name = "par-core"
+version = "1.0.3"
+source = "registry+https://github.com/rust-lang/crates.io-index"
+checksum = "6b506ab63a8bd3cd38858c7bfc2d078a189dc3210c7f8c9be1bbaf50c082a0ae"
+dependencies = [
+ "once_cell",
+]
+
+[[package]]
+name = "par-iter"
+version = "1.0.2"
+source = "registry+https://github.com/rust-lang/crates.io-index"
+checksum = "8a5b20f31e9ba82bfcbbb54a67aa40be6cebec9f668ba5753be138f9523c531a"
+dependencies = [
+ "either",
+ "par-core",
+]
+
 [[package]]
 name = "parking_lot"
 version = "0.12.3"
@@ -6150,7 +6175,17 @@ version = "0.6.4"
 source = "registry+https://github.com/rust-lang/crates.io-index"
 checksum = "e1d3afd2628e69da2be385eb6f2fd57c8ac7977ceeff6dc166ff1657b0e386a9"
 dependencies = [
- "fixedbitset",
+ "fixedbitset 0.4.2",
+ "indexmap 2.8.0",
+]
+
+[[package]]
+name = "petgraph"
+version = "0.7.1"
+source = "registry+https://github.com/rust-lang/crates.io-index"
+checksum = "3672b37090dbd86368a4145bc067582552b29c27377cad4e0a306c97f9bd7772"
+dependencies = [
+ "fixedbitset 0.5.7",
  "indexmap 2.8.0",
 ]
 
@@ -6440,7 +6475,7 @@ dependencies = [
  "log",
  "multimap",
  "once_cell",
- "petgraph",
+ "petgraph 0.6.4",
  "prettyplease",
  "prost",
  "prost-types",
@@ -7285,9 +7320,9 @@ checksum = "388a1df253eca08550bef6c72392cfe7c30914bf41df5269b68cbd6ff8f570a3"
 
 [[package]]
 name = "serde"
-version = "1.0.217"
+version = "1.0.219"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "02fc4265df13d6fa1d00ecff087228cc0a2b5f3c0e87e258d8b94a156e984c70"
+checksum = "5f0e2c6ed6606019b4e29e69dbaba95b11854410e5347d525002456dbbb786b6"
 dependencies = [
  "serde_derive",
 ]
@@ -7324,9 +7359,9 @@ dependencies = [
 
 [[package]]
 name = "serde_derive"
-version = "1.0.217"
+version = "1.0.219"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "5a9bf7cf98d04a2b28aead066b7496853d4779c9cc183c440dbac457641e19a0"
+checksum = "5b0276cf7f2c73365f7157c8123c21cd9a50fbbd844757af28ca1f5925fc2a00"
 dependencies = [
  "proc-macro2",
  "quote",
@@ -7812,9 +7847,9 @@ dependencies = [
 
 [[package]]
 name = "swc_bundler"
-version = "11.0.0"
+version = "15.0.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "452694eeb8bcbe98dc55557757ad0385e5126746c499dfe194b9690a80506086"
+checksum = "900a8dba7470ecf731cba5d733e06134108142b1309147c25d32fab1f6846ac2"
 dependencies = [
  "anyhow",
  "crc",
@@ -7822,7 +7857,7 @@ dependencies = [
  "is-macro",
  "once_cell",
  "parking_lot",
- "petgraph",
+ "petgraph 0.7.1",
  "radix_fmt",
  "relative-path",
  "rustc-hash 2.1.1",
@@ -7836,7 +7871,6 @@ dependencies = [
  "swc_ecma_transforms_optimization",
  "swc_ecma_utils",
  "swc_ecma_visit",
- "swc_fast_graph",
  "swc_graph_analyzer",
  "tracing",
 ]
@@ -7857,10 +7891,11 @@ dependencies = [
 
 [[package]]
 name = "swc_common"
-version = "8.0.0"
+version = "8.1.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "26fbd21a1179166b5635d4b7a6b5930cf34b803a7361e0297b04f84dc820db04"
+checksum = "7d96ac5d021c7c20acb3073940b4ee59b62989a705f855783c4a452e0737a2e6"
 dependencies = [
+ "anyhow",
  "ast_node",
  "better_scoped_tls",
  "cfg-if",
@@ -7910,14 +7945,16 @@ dependencies = [
 
 [[package]]
 name = "swc_ecma_ast"
-version = "8.0.0"
+version = "8.1.2"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "c66db1e9b31f0f91ee0964aba014b4d2dfdc6c558732d106d762b43bedad2c4a"
+checksum = "4062a54522a9c02d2b68cc09282774b87121cd48693b0e67ae8c18b31b709866"
 dependencies = [
  "bitflags 2.8.0",
  "is-macro",
  "num-bigint",
+ "once_cell",
  "phf",
+ "rustc-hash 2.1.1",
  "scoped-tls",
  "serde",
  "string_enum",
@@ -7929,9 +7966,9 @@ dependencies = [
 
 [[package]]
 name = "swc_ecma_codegen"
-version = "8.0.1"
+version = "10.0.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "874889c00e41e5ae487886ff4af2533944584e8b479bc469a3f9708cab7ecdb7"
+checksum = "b85453d346d0642f296c2b3aa204886a6ae2b9652262c3468d6f4556c1ed020d"
 dependencies = [
  "ascii",
  "compact_str",
@@ -7952,9 +7989,9 @@ dependencies = [
 
 [[package]]
 name = "swc_ecma_codegen_macros"
-version = "1.0.1"
+version = "2.0.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "4ac2ff0957329e0dfcde86a1ac465382e189bf42a5989720d3476bea78eaa31a"
+checksum = "e99e1931669a67c83e2c2b4375674f6901d1480994a76aa75b23f1389e6c5076"
 dependencies = [
  "proc-macro2",
  "quote",
@@ -7979,10 +8016,12 @@ dependencies = [
 
 [[package]]
 name = "swc_ecma_parser"
-version = "10.0.0"
+version = "11.1.2"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "f9e336f2b460882df2c132328b3c29ab3e680e1db681a05ec3e406940d98320a"
+checksum = "aa942372098c7c0e7fd8c584a577378d2f659c934429b8252c4e26fae31d7ea7"
 dependencies = [
+ "arrayvec",
+ "bitflags 2.8.0",
  "either",
  "new_debug_unreachable",
  "num-bigint",
@@ -8002,14 +8041,15 @@ dependencies = [
 
 [[package]]
 name = "swc_ecma_transforms_base"
-version = "11.1.1"
+version = "12.2.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "53f823fb2ba61099c06f1557f4d7bc3a957147f2e39f92419204682aa62b46fc"
+checksum = "b46e3a36213d78fb4233e596b8a5c81c6cdafe02d03d780eed006c983aa0a724"
 dependencies = [
  "better_scoped_tls",
  "bitflags 2.8.0",
  "indexmap 2.8.0",
  "once_cell",
+ "par-core",
  "phf",
  "rustc-hash 2.1.1",
  "serde",
@@ -8020,15 +8060,14 @@ dependencies = [
  "swc_ecma_parser",
  "swc_ecma_utils",
  "swc_ecma_visit",
- "swc_parallel",
  "tracing",
 ]
 
 [[package]]
 name = "swc_ecma_transforms_classes"
-version = "11.0.0"
+version = "12.0.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "2111a904b8f3c5dd63f56e7c8048851fcd8f748691a162a5d19a5da49f4a9d35"
+checksum = "d871bbd46d14d032a48c14096abd778a8a87831638343f28b581c3025daa7086"
 dependencies = [
  "swc_atoms",
  "swc_common",
@@ -8052,14 +8091,15 @@ dependencies = [
 
 [[package]]
 name = "swc_ecma_transforms_optimization"
-version = "11.0.0"
+version = "12.0.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "93e98cb0e4e10a839c553d610082b4b920a430019a0150067ac415e6049f12b2"
+checksum = "6646a0a5e3662a2a86369a42f5203f1c92584c37502f9b79d4d10613db0c1fb3"
 dependencies = [
  "dashmap",
  "indexmap 2.8.0",
  "once_cell",
- "petgraph",
+ "par-core",
+ "petgraph 0.7.1",
  "rustc-hash 2.1.1",
  "serde_json",
  "swc_atoms",
@@ -8070,15 +8110,14 @@ dependencies = [
  "swc_ecma_transforms_macros",
  "swc_ecma_utils",
  "swc_ecma_visit",
- "swc_fast_graph",
  "tracing",
 ]
 
 [[package]]
 name = "swc_ecma_transforms_proposal"
-version = "11.0.1"
+version = "12.0.1"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "a3072700bb4401fffed5a152248d0d173a41da94584a4267355fa6772538880b"
+checksum = "5265158f5134b7b37dd2d53e7730921b8b5f567f6baddcc52129c2eb55927214"
 dependencies = [
  "either",
  "rustc-hash 2.1.1",
@@ -8096,11 +8135,11 @@ dependencies = [
 
 [[package]]
 name = "swc_ecma_transforms_react"
-version = "12.0.0"
+version = "13.0.1"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "311218980029ea376a1f53292418d852d50b461d15d9d39f830abf0d1c3bdd6c"
+checksum = "d8e7635afe1e1e798d61ff3107b8d27e437e61f243dd226a47fb10724693be66"
 dependencies = [
- "base64 0.21.7",
+ "base64 0.22.1",
  "dashmap",
  "indexmap 2.8.0",
  "once_cell",
@@ -8122,9 +8161,9 @@ dependencies = [
 
 [[package]]
 name = "swc_ecma_transforms_typescript"
-version = "12.0.0"
+version = "13.0.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "19c32ebb3dd1942d35142de60c9dc0f3c034d26567de7eb8b3ad6de426f5b0e9"
+checksum = "cec3c91a2c37372746ebc5608e30b7c2c3af60216768b59ec6413ee2bfe44c29"
 dependencies = [
  "once_cell",
  "rustc-hash 2.1.1",
@@ -8141,20 +8180,21 @@ dependencies = [
 
 [[package]]
 name = "swc_ecma_utils"
-version = "11.0.0"
+version = "12.0.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "721dc779e7de200da96ac4002c710bc32c988e3e1ebf62b39d32bf99f14d9765"
+checksum = "71d6c8ba7d987dcc254f05ad2c23e7a6ec3f259611af2923a8c1a0602556cd21"
 dependencies = [
  "indexmap 2.8.0",
  "num_cpus",
  "once_cell",
+ "par-core",
+ "par-iter",
  "rustc-hash 2.1.1",
  "ryu-js",
  "swc_atoms",
  "swc_common",
  "swc_ecma_ast",
  "swc_ecma_visit",
- "swc_parallel",
  "tracing",
  "unicode-id",
 ]
@@ -8185,29 +8225,16 @@ dependencies = [
  "syn 2.0.87",
 ]
 
-[[package]]
-name = "swc_fast_graph"
-version = "9.0.0"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "bd24b9798b0538803d0a69cffa5f5e051087fa2bd0d23e5a2f05d32edf9ab671"
-dependencies = [
- "indexmap 2.8.0",
- "petgraph",
- "rustc-hash 2.1.1",
- "swc_common",
-]
-
 [[package]]
 name = "swc_graph_analyzer"
-version = "8.0.0"
+version = "9.0.0"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "ed1b3b564c8316500be98cd8ba3dbd604070958d30494b31e8333a472d011f0b"
+checksum = "fc0f4e0f8aa5907f0070ab5d234b8efc2fb0542859421a0e155b401de1549d05"
 dependencies = [
  "auto_impl",
- "petgraph",
+ "petgraph 0.7.1",
  "rustc-hash 2.1.1",
  "swc_common",
- "swc_fast_graph",
  "tracing",
 ]
 
@@ -8233,15 +8260,6 @@ dependencies = [
  "syn 2.0.87",
 ]
 
-[[package]]
-name = "swc_parallel"
-version = "1.2.0"
-source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "e5f75f1094d69174ef628e3665fff0f81d58e9f568802e3c90d332c72b0b6026"
-dependencies = [
- "once_cell",
-]
-
 [[package]]
 name = "swc_visit"
 version = "2.0.0"
@@ -8702,9 +8720,9 @@ dependencies = [
 
 [[package]]
 name = "tokio-vsock"
-version = "0.7.0"
+version = "0.7.1"
 source = "registry+https://github.com/rust-lang/crates.io-index"
-checksum = "074885a713a0e1e8f2cc6855a004c7c882572d980d4f8262523dc2b094c96da8"
+checksum = "1824fc0300433f400df6b6264a9ab00ba93f39d38c3157fb5f05183476c4af10"
 dependencies = [
  "bytes",
  "futures",
diff --git a/Cargo.toml b/Cargo.toml
index 57c7180c02d343..cfdf66d7f92f8f 100644
--- a/Cargo.toml
+++ b/Cargo.toml
@@ -50,7 +50,7 @@ license = "MIT"
 repository = "https://github.com/denoland/deno"
 
 [workspace.dependencies]
-deno_ast = { version = "=0.46.2", features = ["transpiling"] }
+deno_ast = { version = "=0.46.5", features = ["transpiling"] }
 deno_core = { version = "0.343.0" }
 
 deno_cache_dir = "=0.18.0"
diff --git a/tests/integration/run_tests.rs b/tests/integration/run_tests.rs
index b127ddfd27e3df..1dbb81fce2b425 100644
--- a/tests/integration/run_tests.rs
+++ b/tests/integration/run_tests.rs
@@ -327,7 +327,7 @@ fn permissions_prompt_allow_all() {
   );
 }
 
-#[test]
+#[flaky_test::flaky_test]
 fn permissions_prompt_allow_all_2() {
   TestContext::default()
     .new_command()
@@ -1658,7 +1658,7 @@ mod permissions {
       });
   }
 
-  #[test]
+  #[flaky_test::flaky_test]
   fn _066_prompt() {
     TestContext::default()
       .new_command()
@@ -1695,7 +1695,7 @@ mod permissions {
   }
 }
 
-#[test]
+#[flaky_test::flaky_test]
 #[cfg(windows)]
 fn process_stdin_read_unblock() {
   TestContext::default()