First of all, you should have left Malaysia by a checkout memo in order to leave properly and guarantee that you could re-enter Malaysia if you reapply for VAL. If this was not the case, then it is not guaranteed to get acceptance for new VAL. If you done so, then yes, you should reapply for new visa application. Good luck!
The VAL is valid for one-time use only. Since you already used the VAL to enter Malaysia and left without endorsing the Student Pass, you are required to apply for a new VAL. However, the current VAL should be cancelled prior to the submission of your new application. We advise that you contact your institution for further assistance.