Ouch..I detect a note of sarcasm

Sorry if I came across demanding but you would never in a million years believe how many folks over the years came screaming at me for tech solutions only to stubbornly not follow through with the offered solution. Then come screaming again when the problem is compounded. Computers are fickle and as you know what works on Monday doesn't always work on Tuesday. The ability to sense small problems from large often dictate the path of correction.
That said if you develop a relatively simple routine of maintenance, backup and understanding you drastically reduce system problems over the course of the lifetime of the computer. More importantly if you have the simple everyday generic problems of Pro Tools recognized and under control you'll be less likely to panic when more difficult surprises arise.
Yes the Digi Support Tool is handy. There is a more comprehensive tool on the Digi TDM Mac page but last I checked it was Mac only. There were however some rumors that a PC version was imminent.
As to the mis-directed audio files..fairly common as preferences get tangled for the disk allocation to get scrambled. This also happens when importing sessions from "other" computers or even other drives. Until things settle down I'd go to your disk allocation page every time you fire up a session and re-select the correct drive for allocation.
Also it's not a bad idea in these situations to "save copy in (select audio files only)" all your important sessions in order to re-address (nest) the audio files to that session.
Only trying to help here!