You get this message on Heroku because with Rails 3 they inject plugins at compile time for logging and pipeline.
To prevent these deprecation notices if you add
gem 'rails_12factor', group: 'production'
to your gemfile they will disappear since this gem provides the same functionality as the previously injected plugins. This recently came up on the Heroku Changelog - see https://devcenter.heroku.com/changelog-items/318