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MiniFuzz is a basic testing tool designed to help detect code flaws that may expose security vulnerabilities in file-handling code. This tool creates multiple random variations of file content and feeds it to the application to exercise the code in an attempt to expose unexpected and potentially insecure application behaviors.

Watcher is a Fiddler addon which aims to assist penetration testers in passively finding Web-application vulnerabilities. The security field today has several good choices for HTTP proxies which assist auditors and pen-testers. We chose to implement this as a plugin for Fiddler which already provides the proxy framework for HTTP debugging.

Vulnserver is a Windows based threaded TCP server application that is designed to be exploited. The program is intended to be used as a learning tool to teach about the process of software exploitation, as well as a good victim program for testing new exploitation techniques and shellcode.

Detects file inclusion, sql injection, command execution vulnerabilities of a target Joomla!

JBroFuzz is a web application fuzzer for requests being made over HTTP or HTTPS. Its purpose is to provide a single, portable application that offers stable web protocol fuzzing capabilities

Arachni is an open source web application security scanner framework coded in ruby that helps website administrators and penetration testers evaluate the security of a web application.

Webshag is a multi-threaded, multi-platform web server auditing tool coded in python. It is used for crawling a URL, port scanning, file fuzzing and audits your website.

PHP Vulnerability Hunter is an advanced automated whitebox fuzz testing tool capable of triggering a wide range of exploitable faults in PHP web applications. Minimal configuration is necessary to begin a scan; PHP Vulnerability Hunter doesn’t even need a user specified starting URI.

fimap is a little python tool which can find, prepare, audit, exploit and even google automaticly for local and remote file inclusion bugs in webapps. fimap should be something like sqlmap just for LFI/RFI bugs instead of sql injection. It's currently under heavy development but it's usable.

Wapiti allows you to audit the security of your web applications.
It performs "black-box" scans, i.e. it does not study the source code of the application but will scans the webpages of the deployed webapp, looking for scripts and forms where it can inject data.
Once it gets this list, Wapiti acts like a fuzzer, injecting payloads to see if a script is vulnerable.