Issue #1708722 by David_Rothstein: Fixed Call to undefined function drupal_find_base_themes() in drupal-7.15/includes/module.inc on line 184.

Issue #761608 by JohnAlbin, effulgentsia: Fixed Missing theme settings values because list_themes() has inconsistent theme object data.

Issue #1213536 by David_Rothstein, tim.plunkett, sun, effulgentsia, Yorirou, xjm: Fixed Non-resettable theme_get_registry() cache causes problems for non-interactive installations.

Issue #996236 by fago, sun, pillarsdotnet, xjm: Fixed drupal_flush_all_caches() does not clear entity info cache.

- Patch #765860 by effulgentsia, dww, dereine, mikey_p, xjm, sun, sven.lauer: drupal_alter() fails to order modules correctly in some cases.

- Patch #1049116 by solotandem, David_Rothstein: module_enable() doesn't account for version strings in dependencies[].

- Patch #752226 by sun, carlos8f, JohnAlbin, chx: module_invoke() doesn't work with hooks placed in include files via hook_hook_info().

- Patch #561226 by fago, sun, effulgentsia, YesCT, marcingy: forms (elements) need to able to specify include files to be loaded for building.

- Patch #794936 by c960657, amateescu: system_rebuild_module_data() called twice on admin/build/modules.

#151452 by David_Rothstein, Dave Reid, tstoeckler: Fixed uninstalling modules does not follow dependencies.

- Patch #944198 by sun: functions that call drupal_system_listing() act on potentially invalid system items.

- Patch #508056 by Stevel: _module_build_dependencies() calls drupal_depth_first_search() with wrong param count.

- Patch #836748 by aaronbauman, jhodgdon: improve documentation about install/enable/etc. hook invocation order.

- Patch #765860 by effulgentsia, dww, dereine, mikey_p, sun: make drupal_alter() support multiple alter hooks executed by module weight.

#692950 by effulgentsia, chx, aaron, catch, moshe weitzman, sun: Use hook_module_implements_alter() to allow modules to alter the weight of hooks in module_implements().

- Patch #655740 by ksenzee, casey, aspilicious: fixed small JavaScript issues in the overlay module.