Add new wireChmod(string $path, bool $recursive) to the Functions.php core file functions. This function adjusts permission for a file or directory (optionally resursively) to be consistent with those in the PW $config->chmodFile and $config->chmodDir settings.
Add new methods to $modules API variable including $modules->delete($moduleName); which physically removes the module's files. Also fixed an issue with $modules->resetCache(); not being totally functional until the next page request.
UI enhancements to ProcessModule and add support for module deletion.
Fix issue with FieldtypePage leaving behind references for deleted pages, plus added a tool to clean out orphaned references (to the module settings). The presence of these orphaned references aren't a problem except if you are relying upon "pageref.count" selectors somewhere, as the orphaned references can cause those to return incorrect results. Otherwise, the orphaned references will get deleted naturally over time as pages are saved.