Hi,
I'm having the exact same issue as this question on stackoverflow
http://stackoverflow.com/questions/18123972/emacs-org-mode-clear-non-repeated-scheduled-time-when-deadline-is-repeated
and I've copied it below.

The solution provided to the question modifies the source, which I'd like
to avoid if possible. Is there a better way of doing this like by setting a
variable or a hook? Or does anyone have better ideas about this type of
workflow?

Question:

> I use org-mode to manage some deadlines for repeated tasks. For example, I
> may have something like the following:
> * TODO My Weekly Task
>   DEADLINE <2013-08-10 Sat +1w>
> If I mark the task as DONE, then the deadline automatically increments to
> the next week as expected. However, I also like to use the SCHEDULED time
> to indicate when during the week I would like to actually do that task, for
> example:
> * TODO My Weekly Task
>   DEADLINE <2013-08-10 Sat +1w> SCHEDULED: <2013-08-08 Thu>
> This makes the task show up in the agenda for today (Thursday). However
> when I mark the task DONE, I end up with the following:
> * TODO My Weekly Task
>   DEADLINE <2013-08-17 Sat +1w> SCHEDULED: <2013-08-08 Thu>
> ...and the task still appears in the agenda view for today, even though it
> has been completed.
> Is it possible, for tasks that have a repeated DEADLINE, to get Org-Mode
> to clear the non-repeated SCHEDULED date?


Solution:

> --- a/lisp/org.el
> +++ b/lisp/org.el
> @@ -12835,7 +12835,8 @@ This function is run automatically after each
> state change to a DONE state."
>     (setq type (if (match-end 1) org-scheduled-string
>              (if (match-end 3) org-deadline-string "Plain:"))
>           ts (match-string (if (match-end 2) 2 (if (match-end 4) 4 0))))
> -   (when (string-match "\\([.+]\\)?\\(\\+[0-9]+\\)\\([hdwmy]\\)" ts)
> +   (if (not (string-match "\\([.+]\\)?\\(\\+[0-9]+\\)\\([hdwmy]\\)" ts))
> +       (org-remove-timestamp-with-keyword org-scheduled-string)
>       (setq n (string-to-number (match-string 2 ts))
>         what (match-string 3 ts))
>       (if (equal what "w") (setq n (* n 7) what "d"))


Thanks,
Phil

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