This has gotten difficult to follow and as much as I would like to help I keep just feeling a bit lost.
Your problem description is now scatter gunned over some 7 or more threads you have either started or piggy backed onto and to be blunt, the topic lacks focus and you haven't exactly been forthcoming when asked questions by people who are trying to help with the detective work to assist you. I think I asked about specifics such as sound device settings at some long ago point and there was no reply, just new threads and more tangents.
The analysis of the requested log file would provide clues, even given the problem is almost certainly not Mixcraft.
I have previously mentioned and still maintain your primary issues are sound card/driver oriented.
If I am following correctly (big leap of faith) you have been using a laptop's built in sound card in WaveRT mode.
Or did you say you also have/use a Behringer interface? Or was that someone else?
And if I am adding the clues together properly it is one of those laptop soundcards that shares one jack that reconfigures itself depending on what is plugged in? If so, I can tell you one of my laptops has one of those and the driver is a strange and quirky beast. While it doesn't do the same things you have described, it does trigger pop up windows when you plug in headphones, etc. and I can see where these changes could possibly trigger some "change of hardware" configuration confusion with Mixcraft. Like I said, mine doesn't do exactly what you describe, but it does cause some strange behavior in general, using Mixcraft or not.
The changes you have described could be caused by a corrupt or damaged driver program or the soundcard itself. And as I previously pointed out, self diagnostics may report that all is well. These are not very reliable in my experience.
I would also add I have seen on multiple occasions where "repair utility" programs cause more problems than they solve, and this set of issues fits in well with the results I have seen in the past. On several occasions I have in fact seen "system mechanic" or similar utilities render a computer useless as a result. The results can be worse than the problems they are intended to fix. Just mentioning this as I seem to recall you mentioning the use of such things at various points.
If you are the user who had the USB interface, or have access to someone's to plug in and test, this would provide confirmation, as it "bypasses" the on board sound card.
Wait, back way up...... Aren't you the user who some time ago mentioned using your guitar amps headphone output into the soundcard input as a "preamp" to boost gain? Don't know what just jogged my memory, but if so, yikes. If I am correct about this, and the previous "self interpreting" jack configuration scenario......
May be a clue there somewhere I reckon.