Below are links to articles on using comic books in school and to online comic book applications.
Comic Books in the Classroom (NY Times) reports on the Comic Book Project at Teachers College, Columbia University, which helps students become more interested in art and writing.
Teachers are finding it easier to teach writing, grammar and punctuation with material that students are fully invested in. And it turns out that comic books have other built-in advantages. The pairing of visual and written plotlines that they rely on appear to be especially helpful to struggling readers. No one is suggesting that comic books should substitute for traditional books or for standard reading and composition lessons. Teachers who would once have dismissed comics out of hand are learning to exploit a genre that clearly has a powerful hold on young minds. They are using what works.
Thinking outside the box, inside the panel (Valerie Strauss, Washington Post) also reports on the Comic Book Project. The project's founder, Michael Bitz,
wanted to combine his research findings -- that learning through the arts can have academic and social value for children -- with a creative approach to get kids to combine skills such as reading, writing, brainstorming and conceptualizing ideas. Creating comic books, he said, would allow them to draw on their experiences and interests.
Interview with Michael Bitz of the Comic Book Project (Christian Hill, National Association of Comics Art Educators).
Teachers are getting graphic (Greg Toppo, USA Today) is a lengthy article on those using comic books in public schools with a section on those not in favor. Those in favor feel that getting students interested in reading comics will lead to their wanting to read more serious books.
Even French philosopher Jean-Paul Sartre loved comic books, Gantos says. "This is a pretty heavy thinker, but he said in his autobiography that he started off reading comic books as a child and that if it wasn't for comic books, he never would have stuck with books.
Comic Book Project proves to be effective learning tool is a news release on The Maryland Comic Book Initiative.
Comics in the Classroom is a site devoted to using comics in school and has lesson plans, news, and reviews, all pertaining to using comic books.
Read-Write-Think is a site that has an online comic creator with accompanying lesson plans for using the tools.

Tales from the Public Domain: Bound by Law? is a comic book from the Duke School of Law for teaching about copyright:
“Bound by Law translates law into plain English and abstract ideas into ‘visual metaphors.’ So the comic's heroine, Akiko, brandishes a laser gun as she fends off a cyclopean 'Rights Monster' - all the while learning copyright law basics, including the line between fair use and copyright infringement.” -Brandt Goldstein, The Wall Street Journal online
Heroes in the Classroom: Comic Books in Art Education (Jay Berkowitz and Todd Packer) is a 7-page JSTOR article (published in Art Education) that gives "background, guidelines, and a lesson plan to help you use comics and cartoons in these artistic skills of students."
For those with access, Bitz has a journal article on the Comic Book Project (see excerpt below):
Bitz, M. (2004). The Comic Book Project: Forging alternative pathways to literacy. Journal of Adolescent & Adult Literacy, 47.
In this arts-based literacy initiative in urban after-school environments, children brainstormed, outlined, sketched, wrote, and designed original comic books that represented their lives as urban youth.
Many deep-rooted problems in urban areas of the United States--including crime, poverty, and poor health--correlate with illiteracy. The statistics reported by organizations such as the National Alliance for Urban Literacy Coalitions are telling. Urban citizens who cannot read sufficiently are at a clear disadvantage in life. They are more likely to be poor (see Barton & Jenkins, 1995), to be incarcerated (see Haigler, Harlow, O'Connor, & Campbell, 1994), and to have health problems (see Baker et al., 2002). Meanwhile, another body of research shows a strong correlation between arts-rich environments and children's academic performance (Burton, Horowitz, & Abeles, 1999). Of course, the jury is still out on the conundrum between the chicken and the egg: Do the arts make kids smarter, or are smart kids involved in the arts?
While the debate continues in the academic community, the fact remains that most urban schools are not "rich" in arts or anything else. Most urban schools cannot make a connection between their arts and academic programs be cause there are simply too many other issues to worry about, particularly budgets and standardized test scores. Even in an arts-oriented program, urban youth face extraordinary challenges: family situations, safety concerns, lack of affordable or appropriate instructional opportunities, and peer resentment (Oreck, Baum, & McCartney, 1999). As urban schools continue to struggle, many now look to after-school programs as the future of education in the city. The need for and development of after-school programs are on the rise, and many...
Links to online tools for making comics:
Make Beliefs Comix
Comics Sketch
Strip Generator
Strip Creator
ToonDoos