Sorry for the lack of information here. The pipes are duplicating themselves when I am not looking. The one day they duplicated, all I was working on was pipe, surface labels. The co-worker that I am working on this project with turns around from time to time and says... we have more pipes again.... I know that if you Right Click -> Copy With Base Point on a Civil 3D object, then other Civil 3D objects just randomly start duplicating themself. But I have known about this for quite a while, and I would not allow it to happen to me again.
As for any other information, I am not sure what other tips of what I am doing I can give. It would always be after working in a Viewport, and I never Right Click and Copy with base point any more. Other than that I have no clue.
And what about the new "duplicated" pipes referencing themself to the viewport? This is most strange to me.
Also, I am not sure if it is going to make any difference, but in this particular drawing, all of my pipe labels will crash the drawing when I click on them. This does not happen when they are near the pipe. In our office, we have drawing standards where we pull the labels away from the pipes and run a leader/dimension text from structure to structure. i hope this extra information helps.