New car battery. Fob issues. Pls help

After my car battary died. We gained access with rob through the boot. Central locking work on the internal buttons not the fob, going tomorrow to reprogrammed. Lock smith couldnt open manual door and suspects something is broke in the door and its right key...any had this issue. Reluctant to lock the car when fob is fixed incase something happens again. its currently locked in the garage. Advise on the manual lock would help.
 
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