Route AGENTS.md loading through environment filesystems (#26205)

## Why

Workspace-specific `AGENTS.md` loading needs to use the selected
environment filesystem so remote workspaces and child agents read
instructions from their actual environment instead of the host
filesystem. The app-server should report the same instruction sources
the initialized thread actually loaded, rather than independently
rescanning configuration and filesystem state.

## What changed

- Introduce `LoadedAgentsMd` to retain ordered user, project, and
internal instructions with their provenance.
- Load and canonicalize workspace `AGENTS.md` paths through the primary
`EnvironmentManager` environment, then render the loaded instructions
when constructing turn context.
- Expose cached loaded instruction sources from initialized threads and
use them for app-server start, resume, and fork responses.
- Preserve global `CODEX_HOME` loading and separator behavior while
excluding empty project files that did not supply model-visible
instructions.
- Add integration coverage for CLI injection, selected-environment
provenance and rendering, empty environment selection, and cached
sources on loaded-thread resume.

## Validation

- `just test -p codex-core agents_md`
- `just test -p codex-core
selected_environment_sources_match_model_visible_instructions`
- `just test -p codex-exec agents_md`
- `just test -p codex-app-server instruction_sources`
- `just test -p codex-app-server --status-level fail`

codex-rs/core/src/session/mod.rs

@@ -507,12 +507,13 @@ impl Codex {
 
         let primary_environment = environment_selections.primary_environment();
         let mut user_instruction_warnings = Vec::new();
-        let user_instructions = AgentsMdManager::new(&config)
-            .user_instructions(
-                primary_environment.as_deref(),
-                &mut user_instruction_warnings,
-            )
-            .await;
+        let user_instructions = if let Some(primary_environment) = primary_environment {
+            AgentsMdManager::new(&config)
+                .user_instructions(primary_environment.as_ref(), &mut user_instruction_warnings)
+                .await
+        } else {
+            None
+        };
         config.startup_warnings.extend(user_instruction_warnings);
 
         let exec_policy = if crate::guardian::is_guardian_reviewer_source(&session_source) {
@@ -800,6 +801,17 @@ impl Codex {
         state.session_configuration.thread_config_snapshot()
     }
 
+    pub(crate) async fn instruction_sources(&self) -> Vec<AbsolutePathBuf> {
+        let state = self.session.state.lock().await;
+        state
+            .session_configuration
+            .user_instructions
+            .as_ref()
+            .map_or_else(Vec::new, |instructions| {
+                instructions.sources().cloned().collect()
+            })
+    }
+
     pub(crate) async fn thread_environment_selections(&self) -> Vec<TurnEnvironmentSelection> {
         let state = self.session.state.lock().await;
         state.session_configuration.environments.clone()

codex-rs/core/src/session/session.rs

@@ -1,5 +1,6 @@
 use super::input_queue::InputQueue;
 use super::*;
+use crate::agents_md::LoadedAgentsMd;
 use crate::config::ConstraintError;
 use crate::goals::GoalRuntimeState;
 use crate::skills::SkillError;
@@ -54,8 +55,9 @@ pub(crate) struct SessionConfiguration {
     /// Developer instructions that supplement the base instructions.
     pub(super) developer_instructions: Option<String>,
 
-    /// Model instructions that are appended to the base instructions.
-    pub(super) user_instructions: Option<String>,
+    /// Model instructions that are appended to the base instructions and the
+    /// files that supplied them.
+    pub(super) user_instructions: Option<LoadedAgentsMd>,
 
     /// Personality preference for the model.
     pub(super) personality: Option<Personality>,

codex-rs/core/src/session/turn_context.rs

@@ -1,5 +1,6 @@
 use super::*;
 use crate::SkillLoadOutcome;
+use crate::agents_md::LoadedAgentsMd;
 use crate::config::GhostSnapshotConfig;
 use crate::environment_selection::ResolvedTurnEnvironments;
 use codex_core_skills::HostLoadedSkills;
@@ -551,7 +552,10 @@ impl Session {
             app_server_client_name: session_configuration.app_server_client_name.clone(),
             developer_instructions: session_configuration.developer_instructions.clone(),
             compact_prompt: session_configuration.compact_prompt.clone(),
-            user_instructions: session_configuration.user_instructions.clone(),
+            user_instructions: session_configuration
+                .user_instructions
+                .as_ref()
+                .map(LoadedAgentsMd::text),
             collaboration_mode: session_configuration.collaboration_mode.clone(),
             multi_agent_version,
             personality: session_configuration.personality,