Barbalee, I see you threw yourself into the deep end...
I would say that it can be a challenge when working with so many. However, if you've kept record of what and who you received CVs from and with photo's of the daylily's you can usually narrow it down. As for labeling below is a link about a company that makes the metal label that a few use.
The thread "Paw Paw Everlast Label Company" in
Daylilies forum
As for how I keep track, I will pre-make all of the metal plant markers w/labels when I am planting. I then only remove the identification strip that come with the fans, just before it goes into the hole dug. I will also put this marker in the hole, within the top layer of the soil when covering the roots. I then position my metal marker in the bed. Again, doing this one at a time.
I hope this helps.