Developers of the digital content apps will be able to link to their websites where users can create or manage accounts, according to Apple.
While the change resulted from an agreement with the JFTC, it will apply globally to all reader apps at the App Store, the Silicon Valley tech giant said.
Apple has come under fire for its tight control of the App Store, where developers are required to use its payment system.
Apple charges a commission of as much as 30 per cent on sales of digital content or subscriptions at the App Store, with the payment system making certain the company gets its piece of the action.
"Because developers of reader apps do not offer in-app digital goods and services for purchase, Apple agreed with the JFTC to let developers of these apps share a single link to their website to help users set up and manage their account," Apple said in a post.
Apple last week agreed to loosen payment restrictions on its App Store, a major change announced in a settlement with small developers as the US technology giant faces growing scrutiny and legal challenges over its tightly controlled online marketplace.
The change will allow small developers to inform their customers of alternative payment options beyond the official App Store.
In a class-action lawsuit, the developers had accused Apple of monopolistic distribution practices by operating the sole gateway to get apps or other content onto iPhones and other devices powered by iOS software.
The proposed settlement is pending court approval.