Think Bob gave you some good advice. From the pictures it looks like you do quality work. I am not sure why the top of the cabin was replaced (storm damage, accident?), but I kind of like the lines with the more vertical front windows (i like tilt forward windows, like on a SeaSport Pilot, but those might look too out of place on a cruiser). While Bob may have a little issue with the black window frames, those don't cause me any trouble. I like the radar arch, which is a nice upgrade, but it looks like you need a railing on top of the cabin to hang onto going forward to the bow. Given that this is almost a new boat and you have about 50K in it, I don't doubt that this boat has a "value" of what you are asking. However, finding a buyer at that price my not be quick or easy.
First, the people on this site, and many of the buyers of C-Dories are very brand loyal, so the absence of the C-Dory stripe that identifies it as a C-Dory at a glance will be an issue to those buyers, even if only subconsciously. I don't really think this would be a big issue for most but it will affect the emotional part of buying the boat for some.
The second issue, and the more important issue by far, that you will have in selling this boat to the typical C-Dory owner is that your rebuild is somewhat incongruous. I doubt that there are very many Cruiser owners on here that do not appreciate the kitchen remodel. It is beautiful. But, unlike a Boston Whaler, the principal use of a C-Dory Cruiser is as a pocket cruiser for overnight trips - often for a couple alone, and often retired or flexibly employed (just look at who attends the C-Dory gatherings posted on here). When you took out the dinette, you took away a lot of the charm of the boat for those people. Sitting on a bench eating your evening meal is not nearly as romantic as sitting across a table. While the dinette is not particularly comfortable for traveling, it is intimate for the rest of the time. Your seat design is for fishing/travelling, not pocket cruising. Also, as someone who is always nervous at anchor, I value the dinette as convertible to a bunk. I like being able to just sit up and look out the window to confirm that I am not dragging anchor. I have also taken a couple of friends on overnight fishing or hunting trips and having three bunks makes that possible. With your design, you give up some of the flexibility that the Cruiser is known for and which makes it so popular. So you have a boat designed with seats that are more useful for day fishing and a kitchen that would be the envy of the pocket cruising fleet. It would not be hard to find a buyer that would value one of those. But, depending upon what part of the country you are in and how boats are used there, you might find it more difficult to find a buyer that values both. From my point of view, you converted this boat from a do everything pocket cruiser to a more specific purpose fishing boat. That affects value in that people looking for a specific purpose fishing boat will not necessarily be searching to find a C-Dory Cruiser, making it more difficult for the right buyer to find you.
These are just my opinions and should be taken as such - just one person's opinion. Everyone values different things in boats, as they are all compromises. Good luck finding that right buyer for your boat.
. Boat looks nice.