task: Editor / agent / MCP-client integration (6 issues) #395

Scope

Umbrella tracker for editor / agent / MCP-client integration bugs that aren't covered by an existing per-agent install. Includes install-target compatibility (AlmaLinux), process lifecycle, MCP handshake edge cases, and requests for new agent targets.

Sub-issues

• Impossible to install on AlmaLinux 9.7 #182 — Impossible to install on AlmaLinux 9.7 — FIXED (static Linux binaries since 0eba6df, shipped v0.7.0; no glibc/GLIBCXX dependency)
• codebase-memory-mcp.exe running after quitting VS Code. #185 — codebase-memory-mcp.exe running after quitting VS Code — awaiting reporter v0.7.0 retest (no parent-death watchdog today; asked for details)
• Cursor IDE not being discovered in installation/update #222 — Cursor IDE not being discovered — FIXED (f88d031: Cursor detection + ~/.cursor/mcp.json install/uninstall)
• initialize handshake fails when client sends a string JSON-RPC id #253 — initialize handshake fails on string JSON-RPC id — FIXED (4abcaa4: string ids preserved verbatim through parse→response)
• feat: add Codex SessionStart reminder hook for codebase-memory tool discovery #330 — feat: Codex SessionStart reminder hook — tracked enhancement (accepted; feature, not a bug)
• Support for antigravity cli? #366 — Support for antigravity cli? — DONE (already implemented: detection + ~/.gemini/antigravity/mcp_config.json install/uninstall)

Status (2026-05-31)

4 of 6 resolved (#182, #222, #253 fixed; #366 already shipped). Remaining: #185 (awaiting reporter retest on v0.7.0) and #330 (accepted enhancement, tracked separately). The bug surface of this group is closed; the two open items are a reporter-dependent retest and a feature request.

Acceptance

1. AlmaLinux / RHEL-family install path verified — static binaries remove the glibc dependency. ✅
2. Process lifecycle: server exits cleanly when parent terminates — open (codebase-memory-mcp.exe running after quitting VS Code. #185, pending retest).
3. JSON-RPC id accepts string and integer values per the spec. ✅
4. New agent targets (Codex hook, antigravity) decided in/out of scope — antigravity in (done); Codex hook accepted as tracked enhancement (feat: add Codex SessionStart reminder hook for codebase-memory tool discovery #330).

Why one task

These are all "the integration surface broke for X agent / X distro". The fixes touch cli.c install paths + the MCP server handshake — same surface area.

Added 2026-06-24 (triage)

• The IDE's installation directory is unnecessarily indexed. #403 — IDE installation directory unnecessarily indexed
• v0.7.0 install/update wires the legacy blocking PreToolUse gate, not hook_augment (regresses #214) #409 — install/update wires legacy blocking PreToolUse gate, not hook_augment (regresses Read hooks trigger multiple times per session, causing CC to do weird things to bypass them sometimes. #214) — awaiting reporter repro
• VSCode Profiles do not inherit the default mcp.json from the install process #431 — VSCode Profiles do not inherit the default mcp.json from install
• cursor | vscode : persistence= true is silently ignored on first artifact creation #434 — Cursor / VSCode persistence=true silently ignored on first artifact creation
• Installer adds hooks to both hooks.json and config.toml #570 — Installer adds hooks to both hooks.json and config.toml
• feat: Full OpenCode feature parity with Claude Code — pre-tool hook, session-start context, and skill installation #585 — OpenCode feature parity (pre-tool hook, session-start context, skill)
• [Mistral Vibe CLI] How I got it working with Mistral's Vibe CLI #488 — Mistral Vibe CLI support (new agent target; reporter shared a working setup)

Added 2026-06-29 (triage)

• Windows: cli index_repository fails with "repo_path is required" #680 — Windows CLI index_repository argument parsing fails from extension / PowerShell
• Inconsistencies/bugs in the vscode codex extension #658 — VS Code/Codex extension inconsistency plus query_graph projection serialization bug
• [Windows] MCP stdio startup emits localized path-not-found message on stderr #654 — Windows MCP stdio startup emits localized path-not-found message on stderr
• can be used in oh-my-pi #649 — oh-my-pi agent compatibility / resources/list method mismatch
• Support Junie agent #651 — Junie agent support
• Windows: MCP server hangs on initialize when launched by Hermes/AnyIO stdio client #635 — Windows MCP server hangs on initialize with Hermes/AnyIO stdio client
• Subagents don't receive the codebase-memory-mcp code-discovery reminder #631 — subagents do not receive the codebase-memory code-discovery reminder
• hook_augment PreToolUse augmenter is a structural no-op on Windows (POSIX-only path guards) #618 — Windows hook_augment PreToolUse augmenter is a structural no-op
• Windows: install.ps1 reports success but leaves MCP server unregistered (MotW + swallowed config errors + malformed taskkill) #697 — Windows installer reports success but does not register the MCP server with agents

Added 2026-06-30 (triage)

• feat: add native HTTP/SSE transport mode (--transport flag) #709 — native HTTP/SSE transport mode request for long-lived sessions / reconnects
• feat: Add Codex PreToolUse/PostToolUse hooks for graph context augmentation #715 — Codex PreToolUse/PostToolUse hook support for graph context augmentation

Added 2026-07-01 (triage)

• Request: Add support for Visual Studio GitHub Copilot for codebase-memory-mcp #731 — Visual Studio Copilot strict MCP schema validation requires additionalProperties: false
• Support Goose Agent (auto detect + configure ~/.config/goose/yaml) #728 — Goose agent detection and idempotent config upsert support

Added 2026-07-09 (triage)

• Cline connection throws status=error on resource and prompt template discovery queries #958 — Cline connection throws status=error on resource and prompt template discovery queries
• hook-augment additionalContext never appears in real sessions (0/24 observed) — suspect HA_DEADLINE_MS (300ms) too tight for real cold-start conditions #858 — hook-augment additionalContext never appears in real sessions — suspect 300ms in-process deadline too tight for cold starts
• Problem when working with devcontainer #822 — devcontainer workflow problem

Added 2026-08-03 (triage)

• v0.9.0 Linux/Codex: search_graph MCP call hangs >476s while identical CLI call is instant #1418 — MCP search_graph hangs while the equivalent CLI query is instant
• Claude Code install doesn't wire the PostToolUse (Read-coverage) hook, though hook_augment.c already supports it #1393 — Claude install omits the intended PostToolUse Read hook
• hook-augment emits nothing on 0.9.1-rc.1, including payloads that work on 0.9.0 #1388 — RC hook-augment returns no output for previously working payloads
• install on 0.9.1-rc.1 removes existing Claude Code hooks instead of installing them #1387 — RC install removes existing Claude hooks
• Daemon rejects a byte-identical second copy of its own binary (image_unverifiable); client only sees an indefinite "pending" #1383 — daemon rejects a byte-identical peer and leaves the client pending
• search_graph/trace_path pagination silently truncates agent answers (measured recall drop 0.72 → 0.52) #1382 — pagination defaults reduce agent recall despite exposed cursors
• query_graph: MCP server exits(1) with no diagnostics when a response exceeds 10 MiB — and every reply duplicates its payload, halving the usable budget #1375 — oversized MCP response disconnect plus duplicated payload budget
• Support Grok Build like Codex and Claude Code #1374 — Grok Build integration request
• cli hangs forever reading stdin when no argument-bearing token follows the tool name and stdin is an open pipe (default Node spawn deadlocks) #1359 — CLI blocks while slurping an open non-TTY stdin pipe
• MCP never reconnects after session limit reached / resumed #1353 — MCP does not reconnect after session-limit resume
• hook-augment: needs a warm daemon to ever emit context; install leaves it timing out on every Grep/Glob (follow-up to #858) #1335 — hook augmentation exhausts its deadline without a warm daemon
• Error accessing other projects #1311 — OpenCode accesses paths from an unintended indexed project