The problem you're seeing shouldn't happen.
If two of your triangles are overlapping it's because you've placed the vertices in such a way that when the adjacent triangles are drawn, they overlap. What's probably happening is that these two adjacent triangles share two vertices, but each triangle has its own copy of each vertex that's been calculated to be in a very, very slightly different position.
The solution to the problem isn't to try and make the pixel shader touch the pixel only once it's to use an index buffer (if you aren't already) and have the shared vertices between each triangle actually share the same vertex and not use one that's ever-so-slightly not in the same place as the one used by the adjacent triangle.
If you aren't in control of the tessellation algorithm being used you may have to run a pass over the vertex buffer after its been generated to detect and merge vertices that are within some very small tolerance of one another. Even without an index buffer, a naive solution would be this:
For each vertex in the vertex buffer, compare its position to every other vertex in the rest of the vertex buffer.
If two vertices are within some small tolerance of another, replace the second vertex's position with the position of the one you are comparing it against.
This should have the effect of pairing up the positions of two vertices if they are close enough that you deem them to be the same.
You now shouldn't have any problem with overlapping triangles. In everyday rendering two triangles share edges with each other all the time and you won't ever get the effect where they appear to every-so-slightly overlap. The hardware guarantees that a sample point is either on one side of the line or the other, but never both at the same time, no matter how close the point is to the line (even if it's mathematically on the line, it still fails on one side or the other).