I want to thank everyone for your replies, help and information. I was hoping to reply to each of you individually, but it is not letting me do this, so I will try this in one reply.
1st I figured out the Eurail issue of sending me to London and as someone pointed out, checking train schedule to far in the future makes the computer do strange things. I checked for January and it is a normal 6-7 hour trip. Thank you.
2nd, Normandy is out of the way, but with the 80th anniversary next year and due to my Grandfather (that gave me a love for history) being there 80 years ago, it has been on my wish list for many decades and is one of my main driving forces for this trip.
3rd, Amsterdam gave a combination of the least expensive 1st class flights and gave me a relatively short train trip to Cologne where I finally get to meet some relatives that I met through genealogy 2 decades ago and we will be going to the place that my family lived for hundreds of years dating back to the early 1400's and most likely longer.
Of course there is the option of changing to another entry location, but the purchase price for the tickets are already close to double what I paid and will be more than double for other locations. By the I start the trip, the ticket price will be mid to upper $9k, almost 4x what I paid, so changing will not be an option for me.
4th, Not really my first trip to Europe, but close to it and the train travel is most certainly a brand new thing for me and I am actually looking forward to seeing Europe through the window of the trains. I was last in Munich in 2008 when I won a trip there at a local Oktoberfest in Puyallup, Washington and while there we just used the subway.
I am in the process of booking hotels and part of the getting the times close includes getting an idea of train travel times. My plan from the beginning has been to book a hotel for a few (3-5) days, see the sights and move to the next location. Due to the fact that my friend came up with 13 museums and such that he wanted to see, that will involve several 1 night hotel stays, when we leave Amsterdam he will be heading to Hamburg and I will be going to Cologne. While he is bouncing around Northern Germany, I will spend a few days in Cologne, then a short train ride to St. Goar and now, due to a recommendation here, instead of Bacharach I will be taking the boat to Bingen.
My friend will meet me in Mannheim where we will get a hotel and rental car and drive to the Technic museums in Speyer and Sinsheim, drive back to the Mannheim hotel and drop off the rental car and catch the train to Caen.
Question about Glacier Express. I am wondering about the wisdom in taking the long train ride down to Zermatt and then taking the Glacier Express in May. If the mountains are socked in with clouds for the train ride, well, that would suck. Living most of my life near Mt Rainier I realize that there are no guarantees about weather and visibility, but I am guessing that we would be very lucky if we were not socked in with clouds that time of year.
I am guessing that adding a couple more days to Bayeux trip and then taking the train to Salzberg and spending 3 days there before going to Munich might be less of a gamble, will cost less and will be less stress.
5th, Considering cost, passes, and least likely to miss transfers, If you were to make the choice between Eurail or DB for this trip, which would you choose for your mode of transportation?
We will most likely be traveling 1st class on the trains if that makes a difference and I would prefer High Speed trains for as much of the trip as possible.
6th, Most of our trip is in May, so the D Ticket for Munich sounds like a great idea, but it is looking like they can be a hassle to get for someone that is not living in Europe.
Thanks again for your help