You say one of the "red" valves are for the shower. Are you sure there isn't one for each the hot and cold for the shower. The cold might also control the toilet which then has a second shut-off. I've never known of shut-offs for a shower but personally think it is a GREAT idea. I understand your not wanting to have them on display now that an open vanity has been selected. Perhaps by removing the nut atop the red handle, the handle can be removed. Then, if ever the shower needs to be shut-off, reattaching the handle will enable that to be done. If that is possible, the values will not be as apparent. Otherwise, it is necessary to turn off the water supply for the whole house to work on the shower faucet.

let me give you my experience with no shut offs under a sink. last year i changed out the kitchen faucet because the old one was worn out. i shut off the main water to the house since the only 2 shutoffs under the sink supplied only the dishwasher and the refrigerator! in removing the old faucet the flexible copper supply line from teh wall to the faucet broke. no big deal, i will just pick up another one. since my wife was going to the store, i sent the line with her while i finished everything else. she calls and no one can find a line like that, but they had a plastic one. i told her i did not care if it was plastic, i just had to have a line. she brings it back, and it is a 1/2 supply line. i look at the wall and i have a 5/8 gas nipple on the cold water pipe! the original owner had used what he had on had to replace the ruptured line at some point, and taken off the shut offs and put on gas nipples. i had to cut these off as they had fully rusted in place, then rethread the 1/2 pipe so i could install shutoff valves. this had to be done THAT NIGHT, and since it was Sunday and 6 pm, i had 1 hour to go buy what i needed or be out of water until the next day since i could not turn the main back on with an open 1/2 pipe. if i had a shut off there in teh first place, all i would have had to do was turn it off and the rest of the f=house would have been fine. put them on. you don't have to do them all at once, change out 1 or 2 at a time until done.

I believe they will have to come up through the countertop. We live in Wisconsin and they can't put the pipes on the outside wall, they have to come up through the floor from the basement. There won't be enough space between the washer and the counter for the valves. I was thinking of some sort of box that could slide out for access if needed but I didn't think about matching the formica. The cabinet maker suggested making a special cabinet for it with a door and it would be fitted like a stacked cabinet between the counter and the upper cabinets. I'm sure they could make it look really nice but I didn't want the extra expense of a matching cabinet. I'm doing a kitchen, laundry room and half bath remodel at once so I will be deciding on tile for some of these areas this week. Depending on how pricey the tile is I might put tile in the space between the countertop and uppers in the laundry room. (Cost might dictate paint for now) The remodeled half bath will be across the hall from the laundry room. We are putting in new tile flooring throughout, maybe just changing up the pattern a little to distinguish the rooms from the hallway, so the color palate will be similar in both rooms. In the bathroom I will have a wall tiled halfway up behind my sink and toilet. I was wondering if I could make the box out of the same tile I use for the half wall in the bathroom. The washer and dryer will be on the same south wall just across a small hallway. Do you think that could work or should I stick with a formica covered box?

I am assuming you want a valve that would be in-line before the toilet supply, with the valve inside the wall but you can turn it off from outside the wall. Something with a decent look and trim instead of an access panel to a normal valve. I found this as an example of what to look for. http://www.qssupplies.co.uk/bathroom-furniture-shower-taps/101162.htm