threadlinking CLAUDE.md

Project instructions for Threadlinking, a local-first tool that stores the reasons behind code changes alongside project files. Unlike Git, which records what changed, it records why decisions were made.

In plain words
What is it for?
Use them to list and explain existing decision threads, save important reasoning, attach files to threads, and search related context. They also describe how to start, continue, and close a work session.
Why use it?
They help an agent recover the thinking behind older work before modifying unfamiliar files. This reduces the chance of repeating rejected ideas or undoing decisions without understanding them.

Instructions file

Install

Getting it into your agent

One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.

agentmods
npx agentmods add instructions/thrialectics/threadlinking/claude-md
Clone the repo
git clone --depth 1 https://github.com/thrialectics/threadlinking
Per session 1,349 This file is loaded in full into every session.
When invoked 1,349 The same file — it is already loaded in full.
Security scan A 0 findings. Scan, not verified.
Origin original No closer match found in the catalogue.
Token cost

What it costs to keep this loaded

Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.

ModelPer sessionOnce invoked
Fable 5 $0.01349 $0.01349
Opus 5 $0.00674 $0.00674
Sonnet 5 $0.00270 $0.00270
Haiku 4.5 $0.00135 $0.00135

Measured 2d ago against content hash d0d60518c5d3, method: parsed. Prices are Anthropic first-party input rates as of 2026-08-30, from the pricing page.

Security

Grade A, and why

threadlinking CLAUDE.md scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 2d ago.

A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.

Nothing flagged

None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.

CLAUDE.md · 169 lines

How it starts

The opening of the file, as written. The whole thing — 169 lines — stays where its author put it; the contents beside it link to each section on GitHub.

Threadlinking

Git tracks what changed. Threadlinking tracks why.

A local-first tool for preserving decision-making context alongside the files you create. When you return to code weeks later, threadlinking tells you the reasoning behind it.


Session Protocol

Starting a Session

  1. Check existing threads: threadlinking list
  2. If resuming work: Note the relevant thread name for this session
  3. For unfamiliar code: Use threadlinking explain path/to/file before modifying

During a Session

  • Before modifying significant files: threadlinking explain path/to/file
  • When making decisions: threadlinking snippet THREAD "why we chose X over Y"
  • When creating files: threadlinking attach THREAD path/to/file
  • Finding related context: threadlinking semantic-search "what you're looking for"

Ending a Session

For significant work sessions, offer to capture what was accomplished:

  • Summarize key decisions made
  • Save snippets for important reasoning
  • Attach any new files to the appropriate thread

Thread Detection

Proactively detect when context should be saved. Look for:

  • User mentions a project name ("working on myproject")
  • Significant new work spanning multiple files
  • Architectural decisions ("let's use PostgreSQL because...")
  • User asks to "remember this" or "save this context"
  • Design choices that future sessions should know about
  • Trade-off discussions ("we could do X or Y, let's go with X because...")

When detected, prompt:

"This looks like context worth preserving. Should I save it to a thread?
I'd suggest 'myproject' - or name it something else."

If a thread might exist: Check threadlinking list first, then ask:

"Should this be part of the existing 'myproject' thread?"

Remember the thread for the session. Once confirmed, use it for all context saves without asking again.


What to Save

Good Snippets (Save These)

  • Decisions: "Chose JWT over sessions for stateless API scaling"
  • Trade-offs: "Picked PostgreSQL over MongoDB - need ACID for payments"
  • Constraints: "Must support offline mode, so local-first architecture"
  • Pivots: "Switched from REST to GraphQL after N+1 query issues"
  • Architecture: "Event sourcing pattern for audit trail requirements"

Read the full file on GitHub · 169 lines

Changes

What this file has done since we first saw it

Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.

  1. 2d ago First seen · 169 lines · 1,349 tokens per session scan A d0d60518c5d3

Subscribe to this mod's changes

threadlinking CLAUDE.md is an instructions file published in the GitHub repository thrialectics/threadlinking (23 stars, last pushed 1mo ago), licensed MIT. It adds 1,349 tokens to every session, about $0.0067 per session on Opus 5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-30.

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