That is the exact TV that I tested the transcoder with, so no hardware issue there. The card you're using is also recommended as one of the best for CRT_Emudriver. What you're seeing isn't a glitch, it just requires some adjustment.
To correct the problem in your first picture of ArcadeOSD, go into horizontal geometry and adjust the horizontal geometry until it is roughly centered. The screen being so far to the right could be the entire problem. If the problem persists go into edit modeline (most of your adjustments will be made from here), try adjusting the dot clock to increase horizontal scan rate a little. Keep vertical scan at 60Hz by adjusting total lines. Make sure "lock scan rates" or whatever it says is off.
Will you be using this TV for anything other than the PC, like a game console?
-If so, display your other source and roughly adjust size and centering using the TV service menu.
-If not, get 640x480i@60i roughly centered using ArcadeOSD, then sized using the TV service menu.
Next, make fine adjustments to geometry while displaying this test pattern in 640x480@60i:

Once the TV is set up, you should be mostly adjusting resolutions in ArcadeOSD to fit the TV. You will have good control of horizontal size and centering, and vertical centering, but keep in mind that vertical size can only be controlled in the TV service menu. You'll have to get it to a happy medium for the games you'll be playing.
The pots inside the CVS-287 are red, green, and blue upper and lower cutoff levels.
To adjust color, first set your brightness and contrast on the TV using this test pattern:

Then, use the pots in the CVS-287 to adjust individual color levels. You should be able to identify which is which by adjusting them and looking at this test pattern:

Just set the lower cutoff levels so the transition to black at the left sides of those bars is smooth and gradual, and ends at the same place for each color. Then adjust the upper cutoff levels by doing the following:
First, focus only on red, and set it to go a good level. This depends on your preference. You can make it as vibrant as you want, but you will be able to see when it becomes oversaturated as subtle differences in shade blur together and it will bleed over onto neighboring areas. Try this both in-game, and using the above test pattern.
Then look for something that's intended to be pure yellow. In terms of light, pure yellow is an equal mix of red and green. So, now that red is set, adjust only green. When there is too much green, yellow areas will have a green tint. When there is too little, they will have a red tint. You can use the yellow bar in this test pattern:

Finally, look for something intended to be pure white, which is equal parts red, green, and blue. Since the other two are set, finish by adjusting only blue. When there is too much blue, white areas will have a blue or "cool" tint. When there is too little, they will have a yellow or "warm" tint. Some people may prefer a cool or warm tint, but I just set it as neutral as I can. Pure white means the colors are well balanced. You can use the right-most white bar on the above test pattern.
You might to recheck your lower cutoffs after this.
Oh, and your card is one of the few that works with both the 6.5 and 9.3 firmware; with most you don't have a choice so I don't know a lot about the differences. If there are no advantages to 9.3, you might want to go with 6.5 to get as many modes as possible. Trying asking Calamity if there is any tradeoff.