diff --git a/.changeset/fix-worktree-project-skills.md b/.changeset/fix-worktree-project-skills.md
new file mode 100644
index 00000000000..1cdec650cef
--- /dev/null
+++ b/.changeset/fix-worktree-project-skills.md
@@ -0,0 +1,5 @@
+---
+"@kilocode/cli": patch
+---
+
+Discover project-installed skills in Agent Manager worktree sessions.
diff --git a/packages/opencode/src/config/config.ts b/packages/opencode/src/config/config.ts
index 4c695b1eac4..f6851e4a064 100644
--- a/packages/opencode/src/config/config.ts
+++ b/packages/opencode/src/config/config.ts
@@ -765,7 +765,7 @@ export const layer = Layer.effect(
         if (!Flag.KILO_DISABLE_PROJECT_CONFIG) {
           // kilocode_change start - also discover kilo.json project files
           for (const name of ["kilo", "opencode"] as const) {
-            for (const file of yield* ConfigPaths.files(name, ctx.directory, ctx.worktree).pipe(Effect.orDie)) {
+            for (const file of yield* ConfigPaths.files(name, ctx.directory, ctx.project.worktree).pipe(Effect.orDie)) {
               yield* merge(
                 file,
                 yield* loadFile(file).pipe(
@@ -785,7 +785,7 @@ export const layer = Layer.effect(
         result.mode = result.mode || {}
         result.plugin = result.plugin || []
 
-        const directories = yield* ConfigPaths.directories(ctx.directory, ctx.worktree)
+        const directories = yield* ConfigPaths.directories(ctx.directory, ctx.project.worktree) // kilocode_change
 
         if (Flag.KILO_CONFIG_DIR) {
           log.debug("loading config from KILO_CONFIG_DIR", { path: Flag.KILO_CONFIG_DIR })
diff --git a/packages/opencode/src/skill/index.ts b/packages/opencode/src/skill/index.ts
index a1c1517e7c4..ee46f65ca86 100644
--- a/packages/opencode/src/skill/index.ts
+++ b/packages/opencode/src/skill/index.ts
@@ -250,7 +250,7 @@ export const layer = Layer.effect(
     const global = yield* Global.Service
     const discovered = yield* InstanceState.make(
       Effect.fn("Skill.discovery")(function* (ctx) {
-        return yield* discoverSkills(config, discovery, fsys, global, ctx.directory, ctx.worktree)
+        return yield* discoverSkills(config, discovery, fsys, global, ctx.directory, ctx.project.worktree) // kilocode_change
       }),
     )
     const state = yield* InstanceState.make(
diff --git a/packages/opencode/test/kilocode/worktree-project-skills.test.ts b/packages/opencode/test/kilocode/worktree-project-skills.test.ts
new file mode 100644
index 00000000000..d65041b4f6c
--- /dev/null
+++ b/packages/opencode/test/kilocode/worktree-project-skills.test.ts
@@ -0,0 +1,49 @@
+import { $ } from "bun"
+import { afterEach, describe, expect } from "bun:test"
+import { CrossSpawnSpawner } from "@opencode-ai/core/cross-spawn-spawner"
+import { Effect, Layer } from "effect"
+import path from "path"
+import { Skill } from "../../src/skill"
+import { disposeAllInstances, provideInstance, tmpdir } from "../fixture/fixture"
+import { testEffect } from "../lib/effect"
+
+const it = testEffect(Layer.mergeAll(Skill.defaultLayer, CrossSpawnSpawner.defaultLayer))
+
+afterEach(() => disposeAllInstances())
+
+describe("worktree project skills", () => {
+  it.live("discovers skills installed in the main repository", () =>
+    Effect.acquireUseRelease(
+      Effect.promise(() => tmpdir({ git: true })),
+      (tmp) =>
+        Effect.gen(function* () {
+          const dir = path.join(tmp.path, ".kilo", "worktrees", "feature")
+          yield* Effect.promise(() => $`git worktree add -b worktree-project-skills ${dir}`.cwd(tmp.path).quiet())
+          yield* Effect.promise(() =>
+            Bun.write(
+              path.join(tmp.path, ".kilo", "skills", "project-skill", "SKILL.md"),
+              `---
+name: project-skill
+description: A skill installed in the main repository.
+---
+
+# Project Skill
+`,
+            ),
+          )
+
+          const list = yield* provideInstance(dir)(
+            Effect.gen(function* () {
+              const skill = yield* Skill.Service
+              return yield* skill.all()
+            }),
+          )
+
+          expect(list.find((item) => item.name === "project-skill")?.location).toBe(
+            path.join(tmp.path, ".kilo", "skills", "project-skill", "SKILL.md"),
+          )
+        }),
+      (tmp) => Effect.promise(() => tmp[Symbol.asyncDispose]()),
+    ),
+  )
+})