From what I gather the line of reasoning is something like:

  > eff cares about technology, in particular 
    electronics and communication.

    > sometimes electronic systems, and the software these 
      systems employ, may be patented.

      > patents in general may foster innovation, but
        when misused, they may also stifle innovation.

        > technological innovation, generally speaking, is
          something the EFF cares about.

          > in texas, there exists a group of political  
            activists colluding together to willfully 
            stifle technological innovation through 
            the careful misuse of U.S. patent law.

            > although the manner in which these political 
              malefactors operate may be subtle and 
              convoluted, there is an obvious sense of the 
              goals behind their actions, and those goals 
              threaten to harm, not just a select group of 
              actors mired in interpersonal grudge matches,
              but every participant in the American civil 
              justice system, by establishing dangerous 
              precedents with long reach and odd side 
              effects that may be weaponized to create 
              widespread strife and conflict amongst anyone 
              coming up against an opponent with the time, 
              money, and the awareness of said precedents.

              > how the EFF is so certain of such intent 
                among these political actors remains 
                unclear, but because of this, the EFF is 
                willing to invest not-insignificant 
                resources in confronting and disrupting
                their malignant behaviors.

                > strategically speaking, should certain
                  specific legal decisions come to pass 
                  in an American jurisdiction, it could 
                  spell disaster for technological 
                  innovation as a whole (really?), based 
                  on the implicit logical corollaries 
                  established by carefully chosen
                  legal battles won by this group.

                  > for this reason the EFF seeks to 
                    challenge the validity of their 
                    actions and their authority to operate
                    in general.