Mike:
That sounds familiar:
Maybe I'm doing things too simply too - from my camera the images are DL'd to the computer using EOS Utility. It puts them into folders with dates (2014_08_03 is the newest one from today). I suppose I could get ambitious and have a "flower" folder, a "people" folder, a "landscape" folder, but I never got around to it, and besides I have a pretty good memory as to when image were taken. Occasionally I call one "Summer Holidays 2014" etc.
Upon exiting LR, I very regularly do an Integrity Check and Optimize Before Backup.
Virtually all the software problems I've ever had can be put down to user error (mine).

(ducks and runs).
Glenn