How do I stop breaks or stutters in the audio file from occurring while editing?

I am using Captivate 8 but I saw this same problem in Cap7. My narrator recorded the audio while recording the video. He did not record to each slide independently, but instead allowed the software to break the narration at mouse clicks. As the editor, I am cleaning up the audio/video and every time I try to edit the audio it causes a stutter (a small silent section) at some other point in the audio file.
For Example: The mouse click occurred in the middle of a word, I re-position this frame break, a small gap is created in the middle of a word someplace else in the audio.
Any editing, even something as simple as changing the volume of the project through the Audio>Edit>Project option, can cause one or more of these brief silences somewhere in the audio. I have tried inserting silence before re-positioning a frame break, but that doesn't solve the problem. Any suggestions would be greatly appreciated. This is taking 10 times longer than it should to do some simple editing.
Thank you!!

In other blogs some mentioned a little tool that stops the video when u go to other pages but it doesn't on Android as the mentioned here

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