Here's a nice autojoin tool I've made - it is NOT complete; consider this as a BETA version. Use the menu (right click channel -> Autojoin) and add channels you wish to join on connect- separate these channels with commas (,). Example, #example,#example1,#example2, etc. You can choose to clear the list, and to check the list. Too update your list, click check, and add those plus the new ones. To join these channels while you connect press f6 within 30 seconds or the script will expire.

There will be updates, look out for a more efficent update option later on in v1.1.

on *:Connect: {
  /ns id <yourpasswordhere>
  set %f6 on
  .timer 1 30 set %f6 off | echo -a Autojoin aborted.
}
alias f6 {
  if ( %f6 == on ) {
    join %autojoinlist
    /timers stop
    set %f6 off
  }
} 

menu channel {
  ..Autojoin
  .Add: { { set %autojoinlist $$?="Type in channels to add to your auto join list." 
  echo -a Your autojoin list is %autojoinlist $+ ! } }
  .Clear all: { { unset %autojoinlist 
  echo -a Your autojoin list has been deleted! } }
  .Check List: { { echo -a Your autojoin list is %autojoinlist $+ !
    }
  }
}