I am hunting the edge of a clear cut, and on one side of it a buck has been making some rubs, and there has been alot of deer sign. If I shot a coyote with my rifle how bad will it mess up my deer hunting. But there are a ton of yotes around and they need to be thinned out. I think I would have alot more deer if we kill some yotes.. any suggestions...

Man, you just never can tell what will happen. If the deer are close to coming out when you shoot a 'yote, they may wait until after dark. Or it may interrupt their pattern for a day or two. On the other hand, they could come out a few minutes after you shoot. There are so many variables and unknown factors that it's kinda hard to say.
BUT - if they coyotes need thinning, and you get a good shot, you might be doing a real good thing for the herd for years to come.
I think I might be inclined to shoot one if I got the chance. If it's hanging around the immediate area of your setup, the deer might shy away anyway, and you won't see them that day. If I shot one say, 30 minutes before dark, I'd leave it lay until after dark - don't come down before that and maybe spook off some nearby deer.

Look on page two of this forum and you will get some good answers. I asked this question last week and got some good advice.

KILL THEM ALL!!!!!

I had rather shoot a yote than a deer ,I saw a fawn ,what was left after ther were ran off .It was not pertty .

I have had does under stand when my hunting friend shot 50 yards away.The does paid no attention to the shot.Deer hear thunder alot probably get used to it.