This release wouldn't be possible without: univate, AlexisWilke, darktygur, manatwo, and many others.
Also, see #797488: Plans for future Ubercart Affiliate 2 development for my thoughts on the next version.
-- disabled the "Upline" page by default (you can enable it in Settings if you want)
-- removed subdomain support (see drupal.org/project/domain for the right way to do this)
-- the cookie tracking settings are now general, no longer per role
-- removed the "switch after" setting for cookied roles. It was unused and confusing.
-- functionality for admin's to appy/remove commission from an order.
-- separate tab to view the commissions on an order (with functionality to edit or remove specific commission)
-- add optional feature to allow subsequent orders for a member to credit the commissions back to the previous affiliate.
-- add CA support [trigger: commission_applied], [conditions: has_affiliate, check_commission, check_level], [actions: override_commission, send_affiliate_email]
-- add token support for the affiliate email
-- add 'level' field to the commission table
-- add an advanced rule based product commissions options for defining commission structures
-- support fixed commissions as well as percentage
-- separate the code for applying the commissions from the hook_order() function
-- split functionality from *.module to a *.user.inc and *.admin.inc files