As Wesley Elsberry shows, Luskin's argument is not with Jones but with the defense in the Dover case, and in particular with the testimony of Michael Behe, who agreed in cross-examination that "there are no peer reviewed articles by anyone advocating for intelligent design supported by pertinent experiments or calculations which provide detailed rigorous accounts of how intelligent design of any biological system occurred."
Jones had to make his decision on the basis of the evidence presented in his court, not on the basis of Luskin's list of publications. Of the documents Luskin lists in refutation of Jones' statements, one of them, a paper by Behe and Snoke, was addressed specifically in the case, and it did not support intelligent design. As Ed Brayton and others have pointed out, in cross-examination in the Dover trial it came out that the Behe and Snoke paper actually is strong evidence against the existence of irreducible complexity. (The Ed Brayton post may also now be found at scienceblogs.com.)
Q. [Rothschild] Now you have never argued for intelligent design in a peer reviewed scientific journal, correct?
A. [Behe] No, I argued for it in my book.
Q. Not in a peer reviewed scientific journal?
A. That’s correct.
Q. And, in fact, there are no peer reviewed articles by anyone advocating for intelligent design supported by pertinent experiments or calculations which provide detailed rigorous accounts of how intelligent design of any biological system occurred, is that correct?
A. That is correct, yes.
Luskin's list of alleged peer-reviewed publications supporting intelligent design hasn't undergone cross-examination in court (except for Behe and Snoke, the treatment of which in the trial Luskin fails to address). Were the publications introduced into the trial, there is little doubt that they would similarly have been torn apart due to lack of proper peer review, lack of original research, and lack of support for intelligent design, as has already occurred at the TalkOrigins site which Luskin links to (but fails to engage with).