1) extract it to jasshelper folder (there should be jasshelper.exe, pjass.exe and sfmpq.dll <- is essential)
2) Edit the wehack.lua file.
find the following function and add one line.

  function compilemap_path(mappath)
    ...

    if cmdargs ~= "" then
      local cmdtable = argsplit(cmdargs)
      wehack.runprocess(cmdargs)
      cmdargs = ""
    end

-- you should add this ->
    wehack.runprocess2("jasshelper\\TcAR.exe \"" .. mappath .. "\"")
-- ^^^^^^
-- mention it should be before jasshelper ! look below

    if havejh and jh_enable.checked then
        cmdline = "jasshelper\\jasshelper.exe"

    ...
  end 

3) well save it. and it should launch at every map save before jasshelper. as i tested it works fine. but you shouldn't have anywhere TopGlobals key word =) (even in string !) you can ofcourse choose another unique key word and i will replace it. (it can contain !@#$%^&*() etc.)