These sites have information on and archives of Apple II publications. Some allow downloading of software featured in the publication.

Apple II Publications Online - http://lamp.a2central.com/
Home of The Lamp! and Apple II News & Notes, two Apple II newsletters published by A2Central. The GenieLamp A2 and A2Pro archives are also available here.

Apple Assembly Lines Archive (Bob Sander-Cederlof) - http://bobsc5.home.comcast.net/aal/
Bob Sander-Cederlof, author of the S-C Macro Assembler and publisher of the Apple Assembly Line newsletter, has made all of the issues and source code available.

Apple Blossom Publishing (Steve Cavanaugh) - http://homepage.mac.com/appleblossom/publications.html
Home of the Apple Blossom newsletter and Hyper Quarterly disks. Also has a HyperCard IIGS FAQ, some hard-to-find software for download, and other Apple II information. It appears to have been last updated in September 2000.

AtariArchives.org - http://www.atariarchives.org/
While not specifically aimed at the Apple II, this site contains the full text of several books such as the Best of Creative Computing books, the Basic Computer Games books, Creating Adventure Games On Your Computer, Computer Controller Cookbook and more.

Call A.P.P.L.E. - see entry on User Groups page
The Call A.P.P.L.E. magazine and book collections are being offered on DVD.

Classic Computer Magazine Archive - http://www.atarimagazines.com
Full-text archives of classic computer magazines such as Creative Computing and Compute.

The Computist Project (Mike Maginnis) - http://www.computist-project.net
Mike has scanned and made available on his site the entire collection of Hardcore Computist, Hardcore Computing, and Core magazines, as well as The Book of Softkeys volumes I, II, and III. In addition, the Computist Starter Kit disk and many library disks are available. A CD image is also available for downloading.

Juiced GS - http://www.juiced.gs/
Home of a quarterly print magazine focusing on the Apple IIgs. Published by Syndicomm.

Nibble Magazine for the Apple II (Mike Harvey) - http://www.nibblemagazine.com/
Nibble was the leading Apple II software magazine during the 80's and now the entire 12 1/2 years of issues is available on DVD/CD.  Along with it are libraries of Nibble Mac and more than 20 volumes of Nibble software books. You'll find some interesting history of the magazine and publisher too... it's worth a visit. Recently, Mike has added a number of disk images of Nibble software available as free downloads.

Odessa Entertainment - http://www.fortunecity.com/victorian/brambles/39/odessa1.html
Online magazines dealing with the Apple IIgs and music. A large list of Apple II links.