So I thought I'd update the Bios and I made an attempt using the instructions for the USB drive and it failed. During one of the many re boots while fussing about the Blue Screen all of a sudden has writing on it? It say's there is issues ( duh) and offered options for a OS refresh. So I followed through because at this point I see little progress towards a resolve. 
 
It asked for my Windows 8.1 disk and after 10 minutes re booted to my log on screen. My desktop sort of looked the way I left it minus all my program short cuts. It produces a list of the software that was not retained, pretty much everything. 
I proceeded to start re installing missing apps. I used all my handy updated mobo driver files which were still in the download folder. So all but the BIOS is up to date now. 
I also did Classic shell so I could find stuff!  
This of course involves many re boots and total shut down re starts ( my choice) . 
No more blue screen ( so far) 
 
So my conclusion is this was yet another case of the OS becoming corrupted after running windows updates. Possibly an update that does not have all it's bytes about it due to internet drop outs which I get occasionally.
 
But we will wait and see how thing progress as now It say's there is a whack of updates to deal with again , 65. So I set system restore at 10 Gigs for now and am setting restore points before I proceed with each major application install. 
 
Grem the picture is not my board. I just was showing what Sata express looks like. 
On my board there is a  sata 3 connector marked 0 and 1 which my OS and DVD are connected to. My data drives are in what is numbered as 3 and 5 of the express sockets. 
The deal is if you use the express socket it uses 2 sata ports and that little port on the left, so 3 connections. Google sata express.  
 
 

Hmmm, sounds similar to an issue I get once in a blue moon and has the screwiest fix. About 5 times in 3+ years I will boot and get invalid startup disk. So, I put in my Win7 recovery disk... It does its startup and says Windows mismatch when attempting a restore and exits (reboots)... I pull out the disk and Windows boots normally. Sort of like a BIOS to SSD fumble.

WOW - what a nightmare.
 
I am these days not too thrilled with how many reports of Windows corruption I am seeing after running Windows Updates.  I have had it happen to me before, as well.
 
Perhaps if it happens again, I would consider moving back to Windows 7 Ultimate x64.
 
Anyways, HOPE your issues are resolved now, and I think your idea of creating restore points is a wise one.
 
Bob Bone
 

I have a dual boot Win 7/8.1 but the 8.1 doesn't really do much.  I have another system with dual boot with Win 8.1 and the Windows 10 preview edition.  Although the 8.1 worked well as my backup when my Win 7 system was down for warranty motherboard repair,  I'm hold out for the finished Win 10 and will dump Windows 8/8.1. 
 
The key to recovery is to have (recent) full drive backups (I use Macrium Reflect).  If there is a major problem, you can restore using the full backup.  I backup to two different hard drives (alternate between them) at least weekly and sometimes more depending on circumstances.  "Backups are not for IF they are ever needed but for WHEN they are needed.
 

Funny thing is I have full image back ups on my old DAW Windows 7 machine. 
I use easeUs, it's free and niffty stuff.  
 http://www.easeus.com/?ad&gclid=COrj8oO-3cICFc6CfgodHSsAeA
 
This one is so new I had not gotten that far. Thank goodness it's not much to put it back as it was. There was no data stored on the C drive other than the Download folder which the restore seemed to keep. all that is left to install is my music apps, Sonar, Nero, Wave Lab and Gold Wave. Then Office for lyrics.
I have asked for Cubase 7 Elements for Christmas ( gasps from the peanut gallery) I have 5 LE  but want to give a full version a test drive. The upgrade to the  8 is actually a few dollars cheaper this way. 
Another good thing was I discovered the Roland A49 now has W8 drivers. Last time I had to use compatibility mode. So I'm sort of happy that this time around there are a few upgrades overall. 
Once I've got it all done I'll do an image back up. 
 
One thing was the Samsung evo 480 SSD firmware update, I sort of narrowed the issue back to that. So might not have been Windows fault, but blaming them feels good. 
 

Just thought I'd follow up. Thought it was solved yesterday! I havn't had much time as I was away for a week and then been working. 
I had no blue screens up to the point where I ran some more updates last night and I then got one today, It hung for about 20 seconds then re booted automatically just fine. Then I could not get it to do it again? So I guess it's now still unsolved. I still don't like the beep so will try removing RAM and see if the beep goes away. Memory test shows all is good after 6 hours last night.