Footage getting deleted after exported

 Yes, that is strange. Can you start a new project, drop in that 3 hour clip. Cut out 5 seconds starting a few seconds in, then try to export. Let's know the results.

Hey, sorry I realized what you meant by export format as soon as I hit the post button on my last reply. I use H.264

Here are my specs.

Processor Intel(R) Core(TM) i7-9700 CPU @ 3.00GHz 3.00 GHz
Installed RAM 48.0 GB (47.9 GB usable)
System type 64-bit operating system, x64-based processor

I'm using Premiere pro on Win

I export through media file if that's what you mean? Sorry, I'm not the most knowledgable person.

And they aren't technically clips. Basically lets say the video is three hours of footage, and I cut out seconds 1-10, and then later cut out seconds 40-50 while deleting everything inbetween and ripple deleting them together. After exporting it, the "clip" that made up seconds 1-10, now only has seconds 1-8. And the "clip" that made up seconds 40-50, also lose about two or three seconds at the end. 

Sorry if that's realy confusing and I didn't explain it very well, it's a super strange issue to try and explain.

I think we need to know something about your sequence and clips, and some screenshots as this is an odd problem. How are you exporting, PP or ME? Win or Mac, specs, export format, clip format, etc...