Captivate 6 editing - on timeline, audio is out of sync after pausing

I am trying to create a software demo for my company. I am using the HD video and then have imported audio recordings over the video.
The big work portion of this project is adding call-out smart shapes on the video during certain portions to highlight what the voiceover is discussing. However, when I pause the timeline so I can add a smart shape, upon resuming from the pause, the audio is out of sync. This happens even if I hit Stop on the timeline, and use my mouse to move the playhead.
This is adding significant amounts of time to my video editing process, to the point where I am missing deadlines for having the videos created. The only solution I have found to guarantee that the call-out smart shapes are in sync with the audio instructions is to Play the timeline from the very beginning, each time after pausing the audio.
Is anyone else experiencing these issues, or know of a way to fix it? This is adding enough time to the editing process that our company is looking into other video editing softwares to replace Captivate.

I always copy the entire PRIVATE folder from camera to hard drive, and then importing from that hard drive folder in to project.
I am saing original, becouse I do not convert them to diferent format. And how could be the original files of video and  audio out of sync???
I am using Premiere for 10 years, I am not new to this software, but never had this problem.

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