Gutenberg-e electronic monograph series (www.gutenberg-e.org) publishes an ongoing series of digital-only history monographs that incorprate many of the things you discuss (take a look at the Gengenbach book "Binding Memories" for a particularly compelling example of non-linear narrative and architecture in historical writing).

University of Virginia Press E-Imprint devoted to original digital publishing in the humanities (http://www.ei.virginia.edu/),

Valley of the Shadow project from the Virginia Center for Digital History (http://www.vcdh.virginia.edu/research.html). provides another fascinating example of use of digital technology in promoting humanities research, education, and publishing

California Digital Library eScholarship Program http://www.cdlib.org/programs/escholarship.html

perseus project? http://p

Digital Humanities Quarterly

http://www.digitalhumanities.org/dhq/

Stoa

http://stoa.org

Institute for Advanced Technology in the Humanities http://www.iath.virginia.edu/

vectors

http://www.vectorsjournal.org/

NINES: Networked Interface for Nineteenth-Century Electronic Scholarship http://www.nines.org/