I've only seen the issue of the software getting detached from a mining process once and that was when Windows Update took control of my desktop to notify of the latest Creator's Update. If it is happening multiple times, please let me know which mining software and algorithms are being used so I can look into it further.
I had it happen on both my 1070 cards with Neoscrypt-hsr very often, so I disabled that algorithm. I just had it happen on both on my 1060s and 1070s with ccminer-phi mining Lyra2v2.
As for the configuration, I have a standard 6 card righ with 2x 1060s, 2x 1070s and 2x 1080s. It's just difficult to get a handle on what to enable and what not to as there is a A LOT of conflicting information out there. It doesn't help that my cards don't like to be overclocked at all, so I am mostly stock settings. Maybe some tips on on using the program would be good. Such as the information you gave me before. Right now, I'm not seeing any difference at all in what pools I select, they all are about the same. To get any meaningful data though, I would have to run this for a week, but I am a small miner and the prices and difficulties change daily, so that isn't really an option. What works this week will change completely by next week. I understand what the program is doing, but it's just difficult for a small miner like myself to find the right combination of pools and algos as it is all a moving target. Some better reporting would help though.